Citrus Sinensis ID: 005055

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710------
Protein Sequence
MMMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAELL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccEEEcHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHccccccccccccccccccEEEEcccccccccccccEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccEEEEEccccccccccccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccccEEEccccccHHHHHHHcccccccccHHHHHcHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHccccccccccccccccccccccccccccccccccccEEEEEEccccEEEEcHHHHHHHHHccccEEEEEEEEcccccHHHHHHHHHccccccccccccccccccEEEEEccccccccccccEEEEEEcccccccccccccccHHHHHHHHHHHHHEEEcccccHcHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHcccEEEEEEHEEEEEEcccccccHHHHHHHHHcccccccHHHHHcccHHHHHHHHccccEEEEEccccccHHHHHHHHHccHHHccHHHHHHHHHHHHHHHHcccccEcccEEEccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEccc
Coil and Loop (DISEMBL)
mmmkffgkgkdsspynslqpstspsssrlplnstpvtgparpirlvycdekgkfrmdPEAVAALQLVkepigvvsvcgrarqgkSFILNQllgrssgfqvasthrpctkglwlwsaplkrtaldgteyNLLLldsegidaydqtgtystQIFSLAVLLSSMFIYnqmggidesAIDRLSLVTQMTKHIRirasggkttpselgqfsPIFVWLLRDFYLDLvednrkitprDYLEIAlrpvqgsgrdiaAKNEIRDSIralfpdrecftlvrplsnenelqrldqISLDRLRPEFRAGLDALTKFVFertrpkqvgatvltgpVLIGITESYLdainngavptissswQSVEEAECRRAYDSATETYmstfdrskppeevalGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAachssdasIDNVVKVLDGLISeyetschgpgkwQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLqgenislrekSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAELL
Flexible Loop (DISEMBL)
MMMKFFgkgkdsspynslqpstspsssrlplnstpvtgparpiRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRirasggkttpselgQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEialrpvqgsgrdiaAKNEIRDSIRALFPDRECFTlvrplsnenelqrldqislDRLRPEFRAGLDALTKfvfertrpkqvgatvltgpvLIGITESYLDAINNGAVPtissswqsvEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAachssdasiDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSeylkryddaindKKKLADDYTSRinnlqgenislrekssslsKTVDSLkneisdwkrKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIvqertskemqqreDVLREEFSSTLAEKVLSylsrslsrarisaell
Low Complexity Region (SEG)
MMMKFFGKGKDSSPYnslqpstspsssrlplnstpVTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTaaearlaaareqalsaqeeVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVlsylsrslsrarisaell
Disordered region (IsUnstruct)
*****************************************PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGG****SELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSV**********************************HEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSE**SLMLKYR********************************************************************************************************************************WKRKYGVAVRE********************************************************
Disordered Region (DISOPRED)
******************************************IRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLG*************CTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHI*************LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIAL**************EIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLR***HSSDASIDNVVKVLDGLISEYET**H**GKWQKLATFLQQSSEGPILDLVKRLIDQIG*************************************************************************************************************************************************************************************************************L
Disordered Region (DISEMBL)
***********************************VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTIS************RAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLR*************KNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTA**********************KRKYGVAVREAKAALEKAAIVQER*************EEFSSTLAEKVLSYLSRSLSRARISAELL
Disordered Region (DISPRO)
************************************TGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS**KTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAR**ALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARIS****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSExxxxxxxxxxxxxxxxxxxxxxxxxxxxKSEYLKRYDDAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxQKAMEDQVCSExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAELL
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	716	2.2.26 [Sep-21-2011]
Q61107	620	Guanylate-binding protein	no	no	0.488	0.564	0.330	5e-52
Q9H0R5	595	Guanylate-binding protein	yes	no	0.645	0.776	0.304	1e-51
P32456	591	Interferon-induced guanyl	no	no	0.445	0.539	0.333	2e-51
P32455	592	Interferon-induced guanyl	no	no	0.756	0.915	0.285	3e-51
Q8N8V2	638	Guanylate-binding protein	no	no	0.473	0.531	0.326	5e-51
Q5R9T9	633	Guanylate-binding protein	yes	no	0.495	0.560	0.318	5e-51
Q5D1D6	590	Interferon-induced guanyl	N/A	no	0.761	0.923	0.28	8e-51
Q5RBE1	592	Interferon-induced guanyl	no	no	0.756	0.915	0.285	1e-50
Q6ZN66	633	Guanylate-binding protein	no	no	0.494	0.559	0.323	2e-50
Q01514	589	Interferon-induced guanyl	no	no	0.583	0.709	0.297	7e-50

>sp|Q61107|GBP4_MOUSE Guanylate-binding protein 4 OS=Mus musculus GN=Gbp4 PE=1 SV=1

 Score =  206 bits (524), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 120/363 (33%), Positives = 203/363 (55%), Gaps = 13/363 (3%)

Query: 42  PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
           PI LV  + K +  ++ EA+  L+ + +P+ VV++ G  R GKS+++N+L GR+ GF + 
Sbjct: 4   PICLVE-NWKNQLTVNLEAIRILEQIAQPLVVVAIVGLYRTGKSYLMNRLAGRNHGFSLG 62

Query: 102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSS 160
           ST +  TKG+W+W  P          + L+LLD+EG+ D         + IF+LAVLLSS
Sbjct: 63  STVQSETKGIWMWCVPHPTKPT----HTLVLLDTEGLGDVEKGDPKNDSWIFALAVLLSS 118

Query: 161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT---PSELGQFSPIFVWLLRDFY 217
            F+YN M  I++ A+++L  VT++T+ IR ++S  +      SE   F P F+W +RDF 
Sbjct: 119 TFVYNSMSTINQQALEQLHFVTELTQLIRAKSSPREDKVKDSSEFVGFFPDFIWAVRDFA 178

Query: 218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
           L+L  + R IT  +YLE AL+ +QG    +   N  R+ IR  FP R+CF   RP S++ 
Sbjct: 179 LELKLNGRPITEDEYLENALKLIQGDNLKVQQSNMTRECIRYFFPVRKCFVFDRPTSDKR 238

Query: 278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAIN 336
            L +++ +  ++L   F+   +    ++F   + K + G  ++TG  L  + ++Y++AIN
Sbjct: 239 LLLQIENVPENQLERNFQVESEKFCSYIFTNGKTKTLRGGVIVTGNRLGTLVQTYVNAIN 298

Query: 337 NGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAHEAAVQKAL 393
           +G VP + ++  ++ + E   A   A + Y      R + P +    L   H A  ++A+
Sbjct: 299 SGTVPCLENAVTTLAQRENSIAVQKAADHYSEQMAQRMRLPTDTLQELLTVHAACEKEAI 358

Query: 394 AVY 396
           AV+
Sbjct: 359 AVF 361

Binds GTP, GDP and GMP. Hydrolyzes GTP very efficiently; GDP rather than GMP is the major reaction product. Plays a role in erythroid differentiation.
Mus musculus (taxid: 10090)

>sp|Q9H0R5|GBP3_HUMAN Guanylate-binding protein 3 OS=Homo sapiens GN=GBP3 PE=2 SV=3

 Score =  205 bits (521), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 150/493 (30%), Positives = 255/493 (51%), Gaps = 31/493 (6%)

Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I     +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G++
Sbjct: 7   MTGPMCLIE----NTNGELVANPEALKILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKN 62

Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +      E+ L+LLD+EG+ D         + IF+L
Sbjct: 63  KGFSLGSTVKSHTKGIWMWCVPHPKKP----EHTLVLLDTEGLGDVKKGDNQNDSWIFTL 118

Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT---PSELGQFSPIFVW 211
           AVLLSS  +YN MG I++ A+D+L  VT++T  IR ++S  +      ++   F P FVW
Sbjct: 119 AVLLSSTLVYNSMGTINQQAMDQLYYVTELTHRIRSKSSPDENENEDSADFVSFFPDFVW 178

Query: 212 LLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVR 271
            LRDF LDL  D + +TP +YLE +L+  QG+ +     N  R  IR  FP ++CF    
Sbjct: 179 TLRDFSLDLEADGQPLTPDEYLEYSLKLTQGTSQKDKNFNLPRLCIRKFFPKKKCFVFDL 238

Query: 272 PLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITES 330
           P+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  +  +
Sbjct: 239 PI-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIKVNGPRLESLVLT 297

Query: 331 YLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAHEA 387
           Y++AI+ G +P + ++  ++ + E   A   A   Y      + + P E    L + H  
Sbjct: 298 YINAISRGDLPCMENAVLALAQIENSAAVQKAIAHYDQQMGQKVQLPAETLQELLDLHRV 357

Query: 388 AVQKALAVY--NAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQ--- 442
           + ++A  VY  N+      L +KK    L K   K  +  K+N    +D RCS+ +Q   
Sbjct: 358 SEREATEVYMKNSFKDVDHLFQKKLAAQLDK---KRDDFCKQNQEASSD-RCSALLQVIF 413

Query: 443 -SMERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFLQQSSEGPILD 500
             +E +++A  +S        ++ L  L  + YE    G    + L T+L+  S+  + D
Sbjct: 414 SPLEEEVKAGIYSKPGGYCLFIQKLQDLEKKYYEEPRKGIQAEEILQTYLK--SKESVTD 471

Query: 501 LVKRLIDQIGSER 513
            + +  DQI +E+
Sbjct: 472 AILQ-TDQILTEK 483

Binds GTP, GDP and GMP.

Homo sapiens (taxid: 9606)

>sp|P32456|GBP2_HUMAN Interferon-induced guanylate-binding protein 2 OS=Homo sapiens GN=GBP2 PE=1 SV=3

 Score =  204 bits (519), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 110/330 (33%), Positives = 188/330 (56%), Gaps = 11/330 (3%)

Query: 42  PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
           P+ L+  + KG+  ++PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ +GF + 
Sbjct: 10  PMSLID-NTKGQLVVNPEALKILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKKNGFSLG 68

Query: 102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSS 160
           ST +  TKG+W+W  P  +      E+ L+LLD+EG+ D         + IF+LA+LLSS
Sbjct: 69  STVKSHTKGIWMWCVPHPKKP----EHTLVLLDTEGLGDIEKGDNENDSWIFALAILLSS 124

Query: 161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT---PSELGQFSPIFVWLLRDFY 217
            F+YN MG I++ A+D+L  VT++T  I+  +S G  +    ++   F P FVW LRDF 
Sbjct: 125 TFVYNSMGTINQQAMDQLHYVTELTDRIKANSSPGNNSVDDSADFVSFFPAFVWTLRDFT 184

Query: 218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
           L+L  D   IT  DYLE++L+  +G+ +   + N+ R  IR  FP R+CF    P + + 
Sbjct: 185 LELEVDGEPITADDYLELSLKLRKGTDKKSKSFNDPRLCIRKFFPKRKCFVFDWP-APKK 243

Query: 278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAIN 336
            L  L+Q+  + L P+F   +     ++   +  K + G   + GP L  +  +Y++AI+
Sbjct: 244 YLAHLEQLKEEELNPDFIEQVAEFCSYILSHSNVKTLSGGIPVNGPRLESLVLTYVNAIS 303

Query: 337 NGAVPTISSSWQSVEEAECRRAYDSATETY 366
           +G +P + ++  ++ + E   A + A   Y
Sbjct: 304 SGDLPCMENAVLALAQIENSAAVEKAIAHY 333

Binds GTP, GDP and GMP. Hydrolyzes GTP very efficiently; GDP rather than GMP is the major reaction product.

Homo sapiens (taxid: 9606)

>sp|P32455|GBP1_HUMAN Interferon-induced guanylate-binding protein 1 OS=Homo sapiens GN=GBP1 PE=1 SV=2

 Score =  204 bits (518), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 171/599 (28%), Positives = 296/599 (49%), Gaps = 57/599 (9%)

Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I     +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ 
Sbjct: 7   MTGPMCLIE----NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 62

Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +       + L+LLD+EG+ D         + IF+L
Sbjct: 63  KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 118

Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT-----PSELGQFSPIF 209
           AVLLSS F+YN +G I++ A+D+L  VT++T  IR ++S  +        ++   F P F
Sbjct: 119 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 178

Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
           VW LRDF LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF  
Sbjct: 179 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 238

Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
            RP+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  + 
Sbjct: 239 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 297

Query: 329 ESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAH 385
            +Y++AI++G +P + ++  ++ + E   A   A   Y      + + P E    L + H
Sbjct: 298 LTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTETLQELLDLH 357

Query: 386 EAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSA 440
             + ++A+ V+      +  + K  + L QK      E       K+N    +D RCS+ 
Sbjct: 358 RDSEREAIEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSAL 410

Query: 441 IQ----SMERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQS 493
           +Q     +E +++A  +S        V+ L  L  + YE    G    + L T+L  ++S
Sbjct: 411 LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKES 470

Query: 494 SEGPILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLLK-------KQLEDSERYKSE 543
               IL   + L +   +I  ER    +K  S + + K+L+       + +E  ER   E
Sbjct: 471 MTDAILQTDQTLTEKEKEIEVER----VKAESAQASAKMLQEMQRKNEQMMEQKERSYQE 526

Query: 544 YLKRYDDAI-NDKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           +LK+  + + ND+ +L  +    +   LQ +   L+E      K    +KNEI D + K
Sbjct: 527 HLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE---GFQKESRIMKNEIQDLQTK 582

Binds GTP, GDP and GMP.

Homo sapiens (taxid: 9606)

>sp|Q8N8V2|GBP7_HUMAN Guanylate-binding protein 7 OS=Homo sapiens GN=GBP7 PE=2 SV=2

 Score =  203 bits (516), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 118/361 (32%), Positives = 195/361 (54%), Gaps = 22/361 (6%)

Query: 49  DEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCT 108
           + KG   ++ EA+  L  + +P+ VV++ G  R GKS+++N+L G++ GF +  T +  T
Sbjct: 16  NTKGHLVVNSEALEILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKNKGFPLGCTVKSET 75

Query: 109 KGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYS-TQIFSLAVLLSSMFIYNQM 167
           KG+W+W  P          + L+LLD+EG+   +++   S + IF+LAVLLSS F+YN M
Sbjct: 76  KGIWMWCVPHPSKP----NHTLILLDTEGLGDMEKSDPKSDSWIFALAVLLSSSFVYNSM 131

Query: 168 GGIDESAIDRLSLVTQMTKHIRIRASGGKTTP--------SELGQFSPIFVWLLRDFYLD 219
           G I+  A+++L  VT++T+ IR      K+ P        SE   F P F+W +RDF L+
Sbjct: 132 GTINHQALEQLHYVTELTELIR-----AKSCPRPDEVEDSSEFVSFFPDFIWTVRDFTLE 186

Query: 220 LVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENEL 279
           L  D   IT  +YLE AL+ + G    I   N+ R+ IR  FP ++CF   RP++++  L
Sbjct: 187 LKLDGHPITEDEYLENALKLISGKNPQIQNSNKPREWIRHFFPKQKCFVFDRPINDKKLL 246

Query: 280 QRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVL-TGPVLIGITESYLDAINNG 338
             ++++  D+L   F+   +    ++F   + K +   +L TG  L  + E+YLDAIN+G
Sbjct: 247 LHVEEVREDQLDSNFQMQSENFCSYIFTHAKTKTLREGILVTGNRLGMLVETYLDAINSG 306

Query: 339 AVPTISSSWQSVEEAECRRAYDSATETY---MSTFDRSKPPEEVALGEAHEAAVQKALAV 395
           A P + ++   + + E   A   A   Y   M+   R        L + H    ++A+AV
Sbjct: 307 ATPCLENAMAVLAQCENSAAVQRAANHYSQQMAQQVRFPTDTLQELLDVHAVCEREAIAV 366

Query: 396 Y 396
           +
Sbjct: 367 F 367

Binds GTP, GDP and GMP.

Homo sapiens (taxid: 9606)

>sp|Q5R9T9|GBP6_PONAB Guanylate-binding protein 6 OS=Pongo abelii GN=GBP6 PE=2 SV=1

 Score =  202 bits (515), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 118/370 (31%), Positives = 207/370 (55%), Gaps = 15/370 (4%)

Query: 37  TGPAR--PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR 94
           +GP    PI LV  + + +  ++ +A+  L+ + +P+ VV++ G  R GKS+++N L G+
Sbjct: 3   SGPKMLAPICLVENNNE-QLLVNQQAIQILEKISQPVVVVAIVGLYRTGKSYLMNHLAGQ 61

Query: 95  SSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFS 153
           + GF + ST +  TKG+W+W  P          + L+LLD+EG+ D         + IF+
Sbjct: 62  NHGFPLGSTVQSETKGIWMWCVPHPSKP----NHTLVLLDTEGLGDVEKGDPKNDSWIFA 117

Query: 154 LAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS---GGKTTPSELGQFSPIFV 210
           LAVLL S FIYN M  I+  A+++L  VT++T+ I+ ++S    G    +E   F P F+
Sbjct: 118 LAVLLCSTFIYNSMSTINHQALEQLHYVTELTELIKAKSSPRPDGVDDSTEFVSFFPDFI 177

Query: 211 WLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLV 270
           W +RDF L+L  +   IT  +YLE AL+ +QG+   +   N  R+ IR  FP R+CF   
Sbjct: 178 WTVRDFTLELKLNGHPITEDEYLENALKLIQGNNPRVQTSNLPRECIRRFFPKRKCFIFD 237

Query: 271 RPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITE 329
           RP ++++ L  ++++S  +L P+F+   +  + ++F   R K +    ++TG  L  +  
Sbjct: 238 RPTNDKDLLANIEKVSEKQLDPKFQEQTNIFSSYIFTHARTKTLREGIIVTGNRLGTLAV 297

Query: 330 SYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAHE 386
           +Y++A+N+GAVP + ++  ++ + E   A   A + Y      R K P +    L + H 
Sbjct: 298 TYVEAVNSGAVPCLENAVITLAQRENSAAVQRAADYYSQQMAQRVKFPTDTLQELLDMHA 357

Query: 387 AAVQKALAVY 396
           A  ++A+A++
Sbjct: 358 ACEREAIAIF 367

Binds GTP, GDP and GMP.

Pongo abelii (taxid: 9601)

>sp|Q5D1D6|GBP1_CHLAE Interferon-induced guanylate-binding protein 1 OS=Chlorocebus aethiops GN=GBP1 PE=2 SV=1

 Score =  202 bits (514), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 168/600 (28%), Positives = 297/600 (49%), Gaps = 55/600 (9%)

Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I     +  G+  ++PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ 
Sbjct: 7   MTGPMCLIE----NTNGRLMVNPEALKILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKK 62

Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +       + L+LLD+EG+ D         + IF+L
Sbjct: 63  KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHVLVLLDTEGLGDVEKGDNQNDSWIFAL 118

Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT---PSELGQFSPIFVW 211
           A+LLSS F+YN MG I++ A+D+L  VT++T  IR ++S  +      ++   F P FVW
Sbjct: 119 AILLSSTFVYNSMGTINQQAMDQLHYVTELTHRIRSKSSPDENENEDSADFVSFFPDFVW 178

Query: 212 LLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVR 271
            LRDF LDL  D + IT  +YL  +L+  +G+       N  R  IR  FP ++CF   R
Sbjct: 179 TLRDFSLDLEADGQPITADEYLTYSLKLKKGTSEKDKTFNLPRLCIRKFFPKKKCFVFDR 238

Query: 272 PLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITES 330
           P+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  +  +
Sbjct: 239 PV-HRKKLAQLEKLHDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIKVNGPRLESLVLT 297

Query: 331 YLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAHEA 387
           Y++AI++G +P + ++  ++ + E   A   A   Y      + + P E    L + H  
Sbjct: 298 YVNAISSGDLPCMENAVLALAQIENSAAVQKAVAHYEQQMGQKVQLPTETLQELLDLHRD 357

Query: 388 AVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSAIQ 442
           + ++A+ V+      +  + K  + L QK      E       K+N    +D RCS+ +Q
Sbjct: 358 SEREAIEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSALLQ 410

Query: 443 S----MERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQSSE 495
                +E +++   +S        ++ L  L  + YE    G    + L T+L  ++S  
Sbjct: 411 DIFSPLEEEVKMGIYSKPGGYRLFIQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMT 470

Query: 496 GPILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLLK-------KQLEDSERYKSEYL 545
             IL   + L +   +I  ER    +K  S + + K+L+       + +E  ER   E+L
Sbjct: 471 DAILQTDQTLTEKEKEIEVER----VKAESAQASTKMLQEIQRKNEQMMEQKERSYQEHL 526

Query: 546 KRYDDAIN-DKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQ 603
           K+  + +  D+ +L  +    +   LQ +   L+E   + S+    ++NEI D ++K  Q
Sbjct: 527 KQLTEKMERDRAQLLKEQERTLALKLQEQERLLKEGFQTESR---KMQNEIQDLQKKMRQ 583

Binds GTP, GDP and GMP.

Chlorocebus aethiops (taxid: 9534)

>sp|Q5RBE1|GBP1_PONAB Interferon-induced guanylate-binding protein 1 OS=Pongo abelii GN=GBP1 PE=2 SV=1

 Score =  202 bits (513), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 171/599 (28%), Positives = 294/599 (49%), Gaps = 57/599 (9%)

Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I        G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ 
Sbjct: 7   MTGPMCLIE----STNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 62

Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +       + L+LLD+EG+ D         + IF+L
Sbjct: 63  KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 118

Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT-----PSELGQFSPIF 209
           AVLLSS F+YN +G I++ A+D+L  VT++T  IR ++S  +        ++   F P F
Sbjct: 119 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 178

Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
           VW LRDF LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF  
Sbjct: 179 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 238

Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
            RP+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  + 
Sbjct: 239 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 297

Query: 329 ESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAH 385
            +Y++AI++G +P + ++  ++ + E   A   A   Y     +    P E +  L + H
Sbjct: 298 LTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLH 357

Query: 386 EAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSA 440
             + ++A+ V+      +  + K  + L QK      E       K+N    +D RCS  
Sbjct: 358 RDSEREAIEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSGL 410

Query: 441 IQ----SMERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQS 493
           +Q     +E +++A  +S        V+ L  L  + YE    G    + L T+L  ++S
Sbjct: 411 LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKES 470

Query: 494 SEGPILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLLK-------KQLEDSERYKSE 543
               IL   + L +   +I  ER    +K  S + + K+L+       + +E  ER   E
Sbjct: 471 MTDAILQTDQTLTEKEKEIEVER----VKAESAQASAKMLQEMQRKNEQMMEQKERSYQE 526

Query: 544 YLKRYDDAI-NDKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           +LK+  + + ND+ +L  +    +   LQ +   L+E      K    +KNEI D + K
Sbjct: 527 HLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE---GFQKESRIMKNEIQDLQTK 582

Binds GTP, GDP and GMP.

Pongo abelii (taxid: 9601)

>sp|Q6ZN66|GBP6_HUMAN Guanylate-binding protein 6 OS=Homo sapiens GN=GBP6 PE=2 SV=1

 Score =  201 bits (510), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 120/371 (32%), Positives = 207/371 (55%), Gaps = 17/371 (4%)

Query: 37  TGPAR--PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR 94
           +GP    P+ LV  + + +  ++ +A+  L+ + +P+ VV++ G  R GKS+++N L G+
Sbjct: 3   SGPKMLAPVCLVENNNE-QLLVNQQAIQILEKISQPVVVVAIVGLYRTGKSYLMNHLAGQ 61

Query: 95  SSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFS 153
           + GF + ST +  TKG+W+W  P          + L+LLD+EG+ D         + IF+
Sbjct: 62  NHGFPLGSTVQSETKGIWMWCVPHPSKP----NHTLVLLDTEGLGDVEKGDPKNDSWIFA 117

Query: 154 LAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS---GGKTTPSELGQFSPIFV 210
           LAVLL S F+YN M  I+  A+++L  VT++T+ I+ ++S    G    +E   F P F+
Sbjct: 118 LAVLLCSTFVYNSMSTINHQALEQLHYVTELTELIKAKSSPRPDGVEDSTEFVSFFPDFL 177

Query: 211 WLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLV 270
           W +RDF L+L  +   IT  +YLE AL+ +QG+   +   N  R+ IR  FP R+CF   
Sbjct: 178 WTVRDFTLELKLNGHPITEDEYLENALKLIQGNNPRVQTSNFPRECIRRFFPKRKCFVFD 237

Query: 271 RPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV--GATVLTGPVLIGIT 328
           RP ++++ L  ++++S  +L P+F+   +    ++F   R K +  G TV TG  L  + 
Sbjct: 238 RPTNDKDLLANIEKVSEKQLDPKFQEQTNIFCSYIFTHARTKTLREGITV-TGNRLGTLA 296

Query: 329 ESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEV--ALGEAH 385
            +Y++AIN+GAVP + ++  ++ + E   A   A + Y      R K P +    L + H
Sbjct: 297 VTYVEAINSGAVPCLENAVITLAQRENSAAVQRAADYYSQQMAQRVKLPTDTLQELLDMH 356

Query: 386 EAAVQKALAVY 396
            A  ++A+A++
Sbjct: 357 AACEREAIAIF 367

Binds GTP, GDP and GMP.

Homo sapiens (taxid: 9606)

>sp|Q01514|GBP1_MOUSE Interferon-induced guanylate-binding protein 1 OS=Mus musculus GN=Gbp1 PE=1 SV=1

 Score =  199 bits (506), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 140/471 (29%), Positives = 241/471 (51%), Gaps = 53/471 (11%)

Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQ 99
           + P+ L+   E  +  ++ EA+  L  + +P+ VV++ G  R GKS+++N+L G+ +GF 
Sbjct: 8   SEPMCLIENTE-AQLVINQEALRILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKRTGFS 66

Query: 100 VASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYS-TQIFSLAVLL 158
           + ST +  TKG+W+W  P  + A       L+LLD+EG++  ++    +   IF+LAVLL
Sbjct: 67  LGSTVQSHTKGIWMWCVPHPKKAGQ----TLVLLDTEGLEDVEKGDNQNDCWIFALAVLL 122

Query: 159 SSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKT---TPSELGQFSPIFVWLLRD 215
           SS FIYN +G I++ A+D+L  VT++T  I+ ++S  ++     +    F PIFVW LRD
Sbjct: 123 SSTFIYNSIGTINQQAMDQLHYVTELTDLIKSKSSPDQSDVDNSANFVGFFPIFVWTLRD 182

Query: 216 FYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSN 275
           F LDL  D   ITP +YLE +L   +G+  +    N  R  IR  FP R+CF   RP  +
Sbjct: 183 FSLDLEFDGESITPDEYLETSLALRKGTDENTKKFNMPRLCIRKFFPKRKCFIFDRP-GD 241

Query: 276 ENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDA 334
             +L +L+ I  D+L  EF   +   T ++F  +  K + G   + GP L  + ++Y+ A
Sbjct: 242 RKQLSKLEWIQEDQLNKEFVEQVAEFTSYIFSYSGVKTLSGGITVNGPRLKSLVQTYVSA 301

Query: 335 INNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDR--SKPPEEVA-LGEAHEAAVQK 391
           I +G +P + ++  ++ + E   A   A   Y    ++    P E +  L + H    ++
Sbjct: 302 ICSGELPCMENAVLTLAQIENSAAVQKAITYYEEQMNQKIHMPTETLQELLDLHRTCERE 361

Query: 392 ALAVYNAGAVGVGLARKKYEGLLQKFFRK--AFEDHKKNVYMEADIRCSSAIQSMERKLR 449
           A+ V+          +  ++ + QKF  +  A  + K++ +++ ++  SSA         
Sbjct: 362 AIEVF---------MKNSFKDVDQKFQEELGAQLEAKRDAFVKKNMDMSSA--------- 403

Query: 450 AACHSSDASIDNVVKVLDGLISEYET-----SCHGPGKWQKLATFLQQSSE 495
              H SD        +L+GL +  E      + + PG +     FLQ+  E
Sbjct: 404 ---HCSD--------LLEGLFAHLEEEVKQGTFYKPGGY---YLFLQRKQE 440

Binds GTP, GDP and GMP.

Mus musculus (taxid: 10090)

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	716
224077052	1070	predicted protein [Populus trichocarpa]	0.924	0.618	0.818	0.0
255536707	1065	interferon-induced guanylate-binding pro	0.966	0.649	0.775	0.0
356548658	1060	PREDICTED: uncharacterized protein LOC10	0.972	0.656	0.770	0.0
145358912	1082	Guanylate-binding protein [Arabidopsis t	0.972	0.643	0.748	0.0
449433796	1062	PREDICTED: uncharacterized protein LOC10	0.963	0.649	0.781	0.0
356521418	1060	PREDICTED: uncharacterized protein LOC10	0.972	0.656	0.769	0.0
356546617	1059	PREDICTED: uncharacterized protein LOC10	0.959	0.648	0.766	0.0
9757727	1060	unnamed protein product [Arabidopsis tha	0.941	0.635	0.718	0.0
222632561	1062	hypothetical protein OsJ_19548 [Oryza sa	0.910	0.613	0.697	0.0
242091367	1051	hypothetical protein SORBIDRAFT_09g02844	0.969	0.660	0.649	0.0

>gi|224077052|ref|XP_002305110.1| predicted protein [Populus trichocarpa] gi|222848074|gb|EEE85621.1| predicted protein [Populus trichocarpa]

 Score = 1151 bits (2978), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 542/662 (81%), Positives = 606/662 (91%)

Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           VTGPARPIRLVY DEKGKFRMD EAVAALQLVKEPIGVVSVCGR+RQGKSFILNQLLGRS
Sbjct: 37  VTGPARPIRLVYYDEKGKFRMDSEAVAALQLVKEPIGVVSVCGRSRQGKSFILNQLLGRS 96

Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLA 155
           SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA+DQTGTYSTQIFSLA
Sbjct: 97  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAFDQTGTYSTQIFSLA 156

Query: 156 VLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRD 215
           VLLSSMFIYNQMGGIDE+A+DRLSLVTQMTKHIR+RASGG+++ SELGQFSPIFVWLLRD
Sbjct: 157 VLLSSMFIYNQMGGIDEAALDRLSLVTQMTKHIRVRASGGRSSASELGQFSPIFVWLLRD 216

Query: 216 FYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSN 275
           FYLDLVEDN++ITPRDYLE+ALRPVQGSG+DIAAKNEIRDSIRALFPDRECF LVRPL+N
Sbjct: 217 FYLDLVEDNKRITPRDYLELALRPVQGSGKDIAAKNEIRDSIRALFPDRECFPLVRPLNN 276

Query: 276 ENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAI 335
           EN+LQR+DQISLD+LRPEFRAGLDALTKFVFERTRPKQVGATV+TGP+L+GITESYL+A+
Sbjct: 277 ENDLQRMDQISLDKLRPEFRAGLDALTKFVFERTRPKQVGATVMTGPILVGITESYLEAL 336

Query: 336 NNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAV 395
           NNGAVPTISSSWQSVEEAECRRAYD+ATE YMS+FDRSKPPEEV L E+H+ AVQK+LA 
Sbjct: 337 NNGAVPTISSSWQSVEEAECRRAYDTATEIYMSSFDRSKPPEEVFLRESHDEAVQKSLAA 396

Query: 396 YNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSS 455
           +NA AVG+G ARKKYEGLLQKFFR+A ED+K+N +MEAD+RCS+AIQ+ME++LRAACH+S
Sbjct: 397 FNAAAVGIGSARKKYEGLLQKFFRRALEDYKRNAFMEADLRCSNAIQNMEKRLRAACHAS 456

Query: 456 DASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSS 515
           DA+IDN+VKVLDGL+SEYETSCHGPGKWQKLA FLQQS EG ILDL KRL D+IGSE+SS
Sbjct: 457 DANIDNIVKVLDGLLSEYETSCHGPGKWQKLAMFLQQSLEGSILDLAKRLNDKIGSEKSS 516

Query: 516 LMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENIS 575
           LML+  S+ED M LL KQLE SE+ KSEY+KRYD+AIN+KKKLADDY  RIN+LQ    S
Sbjct: 517 LMLRCHSMEDKMALLHKQLEASEKDKSEYMKRYDEAINEKKKLADDYMRRINDLQSNRGS 576

Query: 576 LREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAA 635
           L E+ SSL K ++S K E S+WKRK+DQVL+KQKA E+Q  SEI +LKSRS+A+EARLAA
Sbjct: 577 LDERCSSLVKALESAKQETSNWKRKHDQVLSKQKADEEQAASEIAILKSRSSASEARLAA 636

Query: 636 AREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLA 695
           A EQ  SA+E+  EWKRKY +AVRE KAALEKAA VQERT+KE Q RED LREEFSS L 
Sbjct: 637 AHEQTRSAEEDAAEWKRKYDIAVRETKAALEKAANVQERTNKETQLREDALREEFSSHLV 696

Query: 696 EK 697
            K
Sbjct: 697 VK 698

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536707|ref|XP_002509420.1| interferon-induced guanylate-binding protein, putative [Ricinus communis] gi|223549319|gb|EEF50807.1| interferon-induced guanylate-binding protein, putative [Ricinus communis]

 Score = 1125 bits (2909), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 540/696 (77%), Positives = 606/696 (87%), Gaps = 4/696 (0%)

Query: 2   MMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAV 61
           M K F +G+D++  +S  P TSP  S   ++ T  TGPARPIRLVYCDEKGKFRMDPEAV
Sbjct: 1   MFKIF-RGRDTASESS--PETSPYQSP-SMSQTSSTGPARPIRLVYCDEKGKFRMDPEAV 56

Query: 62  AALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT 121
           A LQLVK PIGVVSVCGRARQGKSFILNQLLGRS+GFQVASTHRPCTKGLWLWSAPLKRT
Sbjct: 57  ATLQLVKGPIGVVSVCGRARQGKSFILNQLLGRSTGFQVASTHRPCTKGLWLWSAPLKRT 116

Query: 122 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV 181
           ALDGTEYNLLLLD+EGIDAYDQTGTYSTQIF+LAVLLSSMFI+NQMGGIDES+ID+LSLV
Sbjct: 117 ALDGTEYNLLLLDTEGIDAYDQTGTYSTQIFTLAVLLSSMFIFNQMGGIDESSIDQLSLV 176

Query: 182 TQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQ 241
           TQ+TKHIR++ASGG+TT SELGQFSPIFVWLLRDFYLDLVEDN+KITPRDYLEIALRPVQ
Sbjct: 177 TQLTKHIRVKASGGRTTVSELGQFSPIFVWLLRDFYLDLVEDNKKITPRDYLEIALRPVQ 236

Query: 242 GSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDAL 301
           GSG DIAAKN IRDSIRALFPDRECF LVRP+  E +LQR+ Q+SLD LRPEFR+GLDAL
Sbjct: 237 GSGGDIAAKNAIRDSIRALFPDRECFALVRPVPEERDLQRMGQLSLDNLRPEFRSGLDAL 296

Query: 302 TKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDS 361
           TKFVFERTRPKQVGAT++TGPVL+GITESYL+A+NNGAVPTI SSWQSVEEAECR+AYD 
Sbjct: 297 TKFVFERTRPKQVGATIMTGPVLVGITESYLEALNNGAVPTICSSWQSVEEAECRKAYDI 356

Query: 362 ATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKA 421
           A E Y STF+RSK PEEVAL EAHE AV+K+L  +NA AVG+G  RKKYEGLL K  +KA
Sbjct: 357 AMEVYRSTFNRSKLPEEVALREAHEEAVRKSLDAFNASAVGIGETRKKYEGLLHKELKKA 416

Query: 422 FEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPG 481
           FED+K+  +MEAD+RCS+AIQ MERKLR ACHSSDA++DN+VK+LDG +S+YETSCHGPG
Sbjct: 417 FEDYKRITFMEADLRCSNAIQKMERKLRTACHSSDANVDNIVKLLDGFLSDYETSCHGPG 476

Query: 482 KWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK 541
           KWQKLA FLQQS EGPI DL KRL DQIGSE+SSLMLK RSIED M LL KQLE SE++K
Sbjct: 477 KWQKLAIFLQQSLEGPICDLAKRLNDQIGSEKSSLMLKCRSIEDKMTLLNKQLEASEKHK 536

Query: 542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY 601
           SEY++RY++AIN+KKKLADDY  RI+++Q     L E+ SSL K ++S K E+SDWKRK+
Sbjct: 537 SEYMQRYNEAINEKKKLADDYMKRISDMQSSRSLLDERCSSLVKALESAKQEMSDWKRKH 596

Query: 602 DQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREA 661
           DQ+L+KQKA EDQ  SEI VLKSRS+A EARLAAA EQ  SAQEE  EWKRKY + VRE 
Sbjct: 597 DQLLSKQKADEDQTSSEIAVLKSRSSATEARLAAAHEQTKSAQEEAAEWKRKYDITVRET 656

Query: 662 KAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           KAALEKAAIVQERT KE Q RED LREEF S LAEK
Sbjct: 657 KAALEKAAIVQERTGKETQLREDALREEFYSQLAEK 692

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548658|ref|XP_003542717.1| PREDICTED: uncharacterized protein LOC100808644 [Glycine max]

 Score = 1103 bits (2854), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 537/697 (77%), Positives = 612/697 (87%), Gaps = 1/697 (0%)

Query: 2   MMKFFGKGKDSSPYNSLQPS-TSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEA 60
           M+K+F +G+DS   ++  PS  + + S    +++PVTGPARPIRLVYCDEKGKFRMDPEA
Sbjct: 1   MLKYFNRGRDSPAADASPPSPAAATPSYSSSSASPVTGPARPIRLVYCDEKGKFRMDPEA 60

Query: 61  VAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKR 120
           VA LQLVKEPIGVVSVCGRARQGKSFILNQLLG+SSGFQVASTHRPCTKGLWLWSAPLK+
Sbjct: 61  VATLQLVKEPIGVVSVCGRARQGKSFILNQLLGKSSGFQVASTHRPCTKGLWLWSAPLKK 120

Query: 121 TALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL 180
           TALDGTEY+LLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE+++DRLSL
Sbjct: 121 TALDGTEYSLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDEASLDRLSL 180

Query: 181 VTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPV 240
           VTQMTKHIR+RASGGKT+ SELGQFSPIFVWLLRDFYLDL EDNRKITPRDYLEIALRPV
Sbjct: 181 VTQMTKHIRVRASGGKTSASELGQFSPIFVWLLRDFYLDLTEDNRKITPRDYLEIALRPV 240

Query: 241 QGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDA 300
           QGSG+DI AKNEIRDSIRALFPDRECFTLVRPL+NEN+LQRLDQIS+D+LR  FR GLD+
Sbjct: 241 QGSGKDIKAKNEIRDSIRALFPDRECFTLVRPLNNENDLQRLDQISMDKLRTGFREGLDS 300

Query: 301 LTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYD 360
           LTKFVFERTRPKQVGAT++TGPVL+GITESYL A+N GAVPTISSSWQSVEEAEC RAYD
Sbjct: 301 LTKFVFERTRPKQVGATMMTGPVLVGITESYLKALNEGAVPTISSSWQSVEEAECHRAYD 360

Query: 361 SATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRK 420
           SAT+ YMS+FDRS PPEEVAL EAHE A QK++A +NA A+GVG ARK YEGLL KFF+K
Sbjct: 361 SATDVYMSSFDRSTPPEEVALREAHEQAKQKSMAAFNAIAIGVGSARKTYEGLLLKFFKK 420

Query: 421 AFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGP 480
           AFED++K+ +MEAD++CS+AIQSME++LRAAC++SDA IDNV KVLD L+SEYE +  GP
Sbjct: 421 AFEDYRKDAFMEADLQCSNAIQSMEKRLRAACNASDAKIDNVAKVLDALLSEYEKTIQGP 480

Query: 481 GKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERY 540
           GKWQ+LA FLQQS EGP+LDLVKRLI  I SE+ S  L+YRSIE+ + LL K+LE +E  
Sbjct: 481 GKWQRLAVFLQQSFEGPVLDLVKRLIATIESEKRSHALQYRSIEEKVDLLTKRLEATEGE 540

Query: 541 KSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           KS Y+KRY+DAINDKKKL D+Y +RI +LQ    SL E+ SSL KT+DS K +  DWKRK
Sbjct: 541 KSNYIKRYEDAINDKKKLMDEYKNRITDLQANRRSLDERYSSLLKTLDSTKQDSMDWKRK 600

Query: 601 YDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVRE 660
           Y+QVL++QKA EDQ  SEI  LKSRS AAEARLAAA+EQA SAQEE EEWKRKY +A RE
Sbjct: 601 YEQVLSRQKAEEDQASSEIAALKSRSGAAEARLAAAKEQAQSAQEEAEEWKRKYDIARRE 660

Query: 661 AKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           A++AL+KAA VQERT+K+ Q RED LREEFS TLAEK
Sbjct: 661 AQSALQKAANVQERTNKQTQLREDALREEFSGTLAEK 697

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145358912|ref|NP_199419.2| Guanylate-binding protein [Arabidopsis thaliana] gi|332007951|gb|AED95334.1| Guanylate-binding protein [Arabidopsis thaliana]

 Score = 1102 bits (2851), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 521/696 (74%), Positives = 601/696 (86%)

Query: 2   MMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAV 61
           M  FFG+G   SP +S  PS     S  P +S+ VTGP RPIRLVYCDEKGKFRMDPEAV
Sbjct: 1   MRSFFGRGGKDSPADSASPSPRSYPSTSPASSSAVTGPPRPIRLVYCDEKGKFRMDPEAV 60

Query: 62  AALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT 121
           A LQLVKEPIGVVSVCGRARQGKSFILNQLLGRS+GFQVASTH+PCTKGLWLWS+P+KRT
Sbjct: 61  ATLQLVKEPIGVVSVCGRARQGKSFILNQLLGRSNGFQVASTHKPCTKGLWLWSSPIKRT 120

Query: 122 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV 181
           ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMF+YNQMGGIDE+++DRLSLV
Sbjct: 121 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFVYNQMGGIDEASLDRLSLV 180

Query: 182 TQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQ 241
           TQMTKHIR++ASGG ++ SELGQFSPIFVWLLRDFYLDLVEDNRKI+PRDYLEIALRPVQ
Sbjct: 181 TQMTKHIRVKASGGTSSRSELGQFSPIFVWLLRDFYLDLVEDNRKISPRDYLEIALRPVQ 240

Query: 242 GSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDAL 301
           GSG DI AKNEIRDSIRALFPDRECFTLVRPL+NE +LQRLDQISL++LRPEF AGLDA 
Sbjct: 241 GSGGDIGAKNEIRDSIRALFPDRECFTLVRPLNNEKDLQRLDQISLEKLRPEFGAGLDAF 300

Query: 302 TKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDS 361
           TKFVFE+TRPKQ+G TV+TGP+L+GIT+SYLDA+NNGAVPTI+SSWQSVEE ECRRAYDS
Sbjct: 301 TKFVFEKTRPKQLGGTVMTGPILVGITQSYLDALNNGAVPTITSSWQSVEETECRRAYDS 360

Query: 362 ATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKA 421
             E YM+ FD+SK PEE AL E HE AV+KALA++N+ AVG G ARKK+E LL K  +K 
Sbjct: 361 GVEAYMAAFDQSKAPEEGALREEHEEAVRKALAIFNSNAVGNGSARKKFEDLLHKDLKKK 420

Query: 422 FEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPG 481
           FED+KKN +MEAD+RC+S IQ ME++LRAACH+S+A++DNVVKVL+  ++EYE SCHGPG
Sbjct: 421 FEDYKKNAFMEADLRCTSTIQRMEKQLRAACHASNANMDNVVKVLEARLAEYEASCHGPG 480

Query: 482 KWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK 541
           KWQKL+ FLQQS EGPI DL KRLID I  E++SL +K+RS+ED MK LK+QL+DSERYK
Sbjct: 481 KWQKLSVFLQQSLEGPIYDLTKRLIDSIAIEKNSLAMKFRSVEDAMKHLKQQLDDSERYK 540

Query: 542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY 601
            EY KRYD++ NDKKKL D Y  RI  LQGEN SL E+ S+L KTV+S K EI +W R Y
Sbjct: 541 LEYQKRYDESNNDKKKLEDIYRERITKLQGENSSLNERCSTLVKTVESKKEEIKEWIRNY 600

Query: 602 DQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREA 661
           DQ++ KQKA+++Q+ SE+EVL++RST +EAR+AAAREQA SA EE +EWKRKY  AV EA
Sbjct: 601 DQIVLKQKAVQEQLSSEMEVLRTRSTTSEARVAAAREQAKSAAEETKEWKRKYDYAVGEA 660

Query: 662 KAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           ++AL+KAA VQER+ KE Q RED LREEFS TLA K
Sbjct: 661 RSALQKAASVQERSGKETQLREDALREEFSITLANK 696

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433796|ref|XP_004134683.1| PREDICTED: uncharacterized protein LOC101220489 [Cucumis sativus]

 Score = 1101 bits (2847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 545/697 (78%), Positives = 620/697 (88%), Gaps = 7/697 (1%)

Query: 1   MMMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEA 60
           M+  F GKG      NS   ST P S+    +S+  TGPARPIRLVYCDEKGKFRMDPEA
Sbjct: 1   MISYFRGKG------NSADVST-PQSASSLSSSSTGTGPARPIRLVYCDEKGKFRMDPEA 53

Query: 61  VAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKR 120
           VA LQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWS PLKR
Sbjct: 54  VATLQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSTPLKR 113

Query: 121 TALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL 180
           TALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMF+YNQMGGIDE+A+DRLSL
Sbjct: 114 TALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFVYNQMGGIDEAALDRLSL 173

Query: 181 VTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPV 240
           VTQMTKHIR+RA+GG+TT +ELGQFSPIFVWLLRDFYLDLVEDNR+ITPRDYLE+ALRPV
Sbjct: 174 VTQMTKHIRVRAAGGRTTSAELGQFSPIFVWLLRDFYLDLVEDNRRITPRDYLELALRPV 233

Query: 241 QGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDA 300
           QGSG+DIAAKNEIRDSIRALFPDR+CFTLVRPL+NEN+LQRLDQISLD+LRPEFR+GLDA
Sbjct: 234 QGSGKDIAAKNEIRDSIRALFPDRDCFTLVRPLNNENDLQRLDQISLDKLRPEFRSGLDA 293

Query: 301 LTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYD 360
            TKFVFERTRPKQVGATV+TGP+L+GITESYL+A+N+GAVPTI+SSWQSVEEAECRRAYD
Sbjct: 294 FTKFVFERTRPKQVGATVMTGPILVGITESYLNALNHGAVPTITSSWQSVEEAECRRAYD 353

Query: 361 SATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRK 420
            A E YMSTFDRSKPPEE AL EAHE AVQK+LA +N+ AVGVG  RKKYEGLL+KF+RK
Sbjct: 354 HAAEVYMSTFDRSKPPEEAALREAHETAVQKSLAAFNSSAVGVGPVRKKYEGLLEKFYRK 413

Query: 421 AFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGP 480
           AFED+K+N Y EAD++C++AIQSME++LR ACH+SDA+I+NVVKVL  L+SEYE S HGP
Sbjct: 414 AFEDYKRNAYTEADLQCTNAIQSMEKRLRVACHASDANINNVVKVLGALLSEYEASSHGP 473

Query: 481 GKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERY 540
           GKWQKLATFL QS EGP+LDL+KRLIDQ+GSE++SL LK RSIED +  LKKQLE SE+Y
Sbjct: 474 GKWQKLATFLHQSLEGPVLDLIKRLIDQVGSEKNSLALKCRSIEDQLNFLKKQLEASEKY 533

Query: 541 KSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           KS+YLKRY+DAINDKKK+ADDY +RI NLQG+  SL E+ SSL KTV+  K E  DWKRK
Sbjct: 534 KSDYLKRYEDAINDKKKVADDYMNRITNLQGDCSSLDERCSSLKKTVEQAKQESLDWKRK 593

Query: 601 YDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVRE 660
           Y+ VL+K KA EDQ  S+I +LKSRS+AAEARLAAAREQ+ SAQEE EEWKRK+ +A+R+
Sbjct: 594 YETVLSKLKAEEDQANSDIAILKSRSSAAEARLAAAREQSQSAQEEAEEWKRKFEIALRD 653

Query: 661 AKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
            KAALEKAA+ +ERT+K+ + RED LR+EFS+ L+ K
Sbjct: 654 TKAALEKAALAEERTNKQTRLREDDLRKEFSNILSVK 690

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521418|ref|XP_003529353.1| PREDICTED: uncharacterized protein LOC100796442 [Glycine max]

 Score = 1097 bits (2836), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 536/697 (76%), Positives = 608/697 (87%), Gaps = 1/697 (0%)

Query: 2   MMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTP-VTGPARPIRLVYCDEKGKFRMDPEA 60
           M+K+F +G+DS   ++  PS +P++    L S   VTGPARPIRLVYCDEKGKF+MDPEA
Sbjct: 1   MLKYFNRGRDSPAADASPPSHAPATPSSSLPSASPVTGPARPIRLVYCDEKGKFQMDPEA 60

Query: 61  VAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKR 120
           VA LQLVKEPIGVVSVCGRARQGKSFILNQLLG+SSGFQVASTHRPCTKGLWLWSAPLK+
Sbjct: 61  VATLQLVKEPIGVVSVCGRARQGKSFILNQLLGKSSGFQVASTHRPCTKGLWLWSAPLKK 120

Query: 121 TALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL 180
           TALDGTEY+LLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE+++DRLSL
Sbjct: 121 TALDGTEYSLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDEASLDRLSL 180

Query: 181 VTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPV 240
           VTQMTKHIR+RASGGKT+ SELGQFSPIFVWLLRDFYLDL EDNRKITPRDYLEIALRPV
Sbjct: 181 VTQMTKHIRVRASGGKTSASELGQFSPIFVWLLRDFYLDLTEDNRKITPRDYLEIALRPV 240

Query: 241 QGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDA 300
           QGSG+DI AKNEIRDSIRALFPDRECFTLVRPL+NEN+LQRLDQIS+D+LR  FR GLDA
Sbjct: 241 QGSGKDIKAKNEIRDSIRALFPDRECFTLVRPLNNENDLQRLDQISMDKLRTGFREGLDA 300

Query: 301 LTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYD 360
           LTKFVFERTRPKQVGAT++TGPVL+GITESYL A+N GAVPTISSSWQSVEEAEC RAYD
Sbjct: 301 LTKFVFERTRPKQVGATMMTGPVLVGITESYLKALNEGAVPTISSSWQSVEEAECHRAYD 360

Query: 361 SATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRK 420
           SAT+ YMS+FDRS PPEEVAL EAHE A QK++A +NA A+GVG ARK YE LL KFF+K
Sbjct: 361 SATDVYMSSFDRSSPPEEVALREAHEQAKQKSMAAFNAIAIGVGSARKTYEALLLKFFKK 420

Query: 421 AFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGP 480
           AFED++K+ +MEAD++CS+AIQSME++LRAAC++SDA IDNV KVLD L+SEYE +  GP
Sbjct: 421 AFEDYRKDAFMEADLQCSNAIQSMEKRLRAACNASDAKIDNVAKVLDALLSEYEKTIQGP 480

Query: 481 GKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERY 540
           GKWQKLA FLQQS EGP+LDLVKRLI  + SE+ S  L+ RSIE+ + LL K+LE +E  
Sbjct: 481 GKWQKLAVFLQQSFEGPVLDLVKRLIATVESEKRSHALQCRSIEEKVDLLTKRLEATEGE 540

Query: 541 KSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           KS Y+KRY+DAINDKKKL D+Y + I +LQ    SL E+ SSL KT+DS K E  DWKRK
Sbjct: 541 KSNYIKRYEDAINDKKKLMDEYKNCITDLQANRRSLDERYSSLLKTLDSTKQESMDWKRK 600

Query: 601 YDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVRE 660
           Y+QVL++QKA EDQ  SEI  LKSRS AAEARLAAA+EQA SAQEE EEWKRKY +A RE
Sbjct: 601 YEQVLSRQKAEEDQASSEIAALKSRSGAAEARLAAAKEQAQSAQEEAEEWKRKYDIARRE 660

Query: 661 AKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           A++AL+KAA VQERT+K+ Q RED LREEFS TLAEK
Sbjct: 661 AQSALQKAANVQERTNKQTQLREDALREEFSGTLAEK 697

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356546617|ref|XP_003541721.1| PREDICTED: uncharacterized protein LOC100776402 [Glycine max]

 Score = 1073 bits (2775), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 535/698 (76%), Positives = 608/698 (87%), Gaps = 11/698 (1%)

Query: 2   MMKFFG--KGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPE 59
           M+K+F   +G+D++   S  P+ +PSSS       PVTGPARPIRLVYCDE G+FRMDPE
Sbjct: 1   MIKYFNFNRGRDNAADAS--PAATPSSS-------PVTGPARPIRLVYCDENGRFRMDPE 51

Query: 60  AVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLK 119
           AVA LQLVKEP+GVVSVCGRARQGKSFILNQLLGR+SGFQVASTHRPCTKGLWLWSAPLK
Sbjct: 52  AVATLQLVKEPVGVVSVCGRARQGKSFILNQLLGRTSGFQVASTHRPCTKGLWLWSAPLK 111

Query: 120 RTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLS 179
           RTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE+A+DRLS
Sbjct: 112 RTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDEAALDRLS 171

Query: 180 LVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRP 239
           LVTQMTKHIR+RASGG+++ SELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRP
Sbjct: 172 LVTQMTKHIRVRASGGRSSTSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRP 231

Query: 240 VQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLD 299
            QGSG+DI AKNEIRDSIRALFPDRECFTLVRPL++EN+LQRLDQISL++LRPEFR+ LD
Sbjct: 232 FQGSGKDITAKNEIRDSIRALFPDRECFTLVRPLNDENDLQRLDQISLEKLRPEFRSSLD 291

Query: 300 ALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAY 359
            LTKFVFER RPKQVGAT++TGPVLIGITESYLDA+N+GAVPTISSSWQSVEEAECR+AY
Sbjct: 292 TLTKFVFERARPKQVGATMMTGPVLIGITESYLDALNHGAVPTISSSWQSVEEAECRKAY 351

Query: 360 DSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFR 419
           DSA E YMS+FD +KPPEE AL EAHE AV+ ++A + A AVGVG  R KYEG+LQKF +
Sbjct: 352 DSAAEIYMSSFDCTKPPEEAALREAHEKAVRISMAAFTASAVGVGSVRTKYEGMLQKFLK 411

Query: 420 KAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHG 479
           KAFED+K+N YMEAD++CS+AIQSME++LRAAC++SDA IDNV KVLD L+ EYE S   
Sbjct: 412 KAFEDYKRNAYMEADLQCSNAIQSMEKRLRAACNASDAKIDNVAKVLDALLCEYEKSIQA 471

Query: 480 PGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSER 539
           P KWQKLA FLQQS EGP+LDL +RLI+++ S++SSL L YR  ED + LL K+LE SE 
Sbjct: 472 PEKWQKLAVFLQQSFEGPVLDLTRRLINKVESDKSSLSLNYRLTEDKIALLNKRLETSES 531

Query: 540 YKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKR 599
            KSEY+KRY+DAINDKK+L D+Y +RI  L+    SL E+ SSLSKT+DS K E  DWKR
Sbjct: 532 EKSEYIKRYEDAINDKKQLTDEYMNRITELRASCRSLDERYSSLSKTLDSTKQESMDWKR 591

Query: 600 KYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVR 659
           KY+QVL++ K+ EDQ  SEI  LKS S+AAEARLAAAREQ+ SAQEE EEWKRKY +AVR
Sbjct: 592 KYEQVLSRHKSEEDQASSEIAALKSHSSAAEARLAAAREQSQSAQEEAEEWKRKYEIAVR 651

Query: 660 EAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           EAKAALEKAAIVQE T+K+ Q RED LREEFSSTLAEK
Sbjct: 652 EAKAALEKAAIVQEYTNKQSQLREDALREEFSSTLAEK 689

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9757727|dbj|BAB08252.1| unnamed protein product [Arabidopsis thaliana]

 Score = 1046 bits (2704), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 500/696 (71%), Positives = 579/696 (83%), Gaps = 22/696 (3%)

Query: 2   MMKFFGKGKDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAV 61
           M  FFG+G   SP +S  PS     S  P +S+ VTGP RPIRLVYCDEKGKFRMDPEAV
Sbjct: 1   MRSFFGRGGKDSPADSASPSPRSYPSTSPASSSAVTGPPRPIRLVYCDEKGKFRMDPEAV 60

Query: 62  AALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT 121
           A LQLVKEPIGVVSVCGRARQGKSFILNQLLGRS+GFQVASTH+PCTKGLWLWS+P+KRT
Sbjct: 61  ATLQLVKEPIGVVSVCGRARQGKSFILNQLLGRSNGFQVASTHKPCTKGLWLWSSPIKRT 120

Query: 122 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV 181
           ALDGTEYNLLLLDSEGIDAYDQT                      MGGIDE+++DRLSLV
Sbjct: 121 ALDGTEYNLLLLDSEGIDAYDQT----------------------MGGIDEASLDRLSLV 158

Query: 182 TQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQ 241
           TQMTKHIR++ASGG ++ SELGQFSPIFVWLLRDFYLDLVEDNRKI+PRDYLEIALRPVQ
Sbjct: 159 TQMTKHIRVKASGGTSSRSELGQFSPIFVWLLRDFYLDLVEDNRKISPRDYLEIALRPVQ 218

Query: 242 GSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDAL 301
           GSG DI AKNEIRDSIRALFPDRECFTLVRPL+NE +LQRLDQISL++LRPEF AGLDA 
Sbjct: 219 GSGGDIGAKNEIRDSIRALFPDRECFTLVRPLNNEKDLQRLDQISLEKLRPEFGAGLDAF 278

Query: 302 TKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDS 361
           TKFVFE+TRPKQ+G TV+TGP+L+GIT+SYLDA+NNGAVPTI+SSWQSVEE ECRRAYDS
Sbjct: 279 TKFVFEKTRPKQLGGTVMTGPILVGITQSYLDALNNGAVPTITSSWQSVEETECRRAYDS 338

Query: 362 ATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKA 421
             E YM+ FD+SK PEE AL E HE AV+KALA++N+ AVG G ARKK+E LL K  +K 
Sbjct: 339 GVEAYMAAFDQSKAPEEGALREEHEEAVRKALAIFNSNAVGNGSARKKFEDLLHKDLKKK 398

Query: 422 FEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPG 481
           FED+KKN +MEAD+RC+S IQ ME++LRAACH+S+A++DNVVKVL+  ++EYE SCHGPG
Sbjct: 399 FEDYKKNAFMEADLRCTSTIQRMEKQLRAACHASNANMDNVVKVLEARLAEYEASCHGPG 458

Query: 482 KWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK 541
           KWQKL+ FLQQS EGPI DL KRLID I  E++SL +K+RS+ED MK LK+QL+DSERYK
Sbjct: 459 KWQKLSVFLQQSLEGPIYDLTKRLIDSIAIEKNSLAMKFRSVEDAMKHLKQQLDDSERYK 518

Query: 542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY 601
            EY KRYD++ NDKKKL D Y  RI  LQGEN SL E+ S+L KTV+S K EI +W R Y
Sbjct: 519 LEYQKRYDESNNDKKKLEDIYRERITKLQGENSSLNERCSTLVKTVESKKEEIKEWIRNY 578

Query: 602 DQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREA 661
           DQ++ KQKA+++Q+ SE+EVL++RST +EAR+AAAREQA SA EE +EWKRKY  AV EA
Sbjct: 579 DQIVLKQKAVQEQLSSEMEVLRTRSTTSEARVAAAREQAKSAAEETKEWKRKYDYAVGEA 638

Query: 662 KAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           ++AL+KAA VQER+ KE Q RED LREEFS TLA K
Sbjct: 639 RSALQKAASVQERSGKETQLREDALREEFSITLANK 674

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222632561|gb|EEE64693.1| hypothetical protein OsJ_19548 [Oryza sativa Japonica Group]

 Score =  977 bits (2526), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 455/652 (69%), Positives = 554/652 (84%)

Query: 46  VYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHR 105
           VYCDEKGKF MDPEAVAALQLVK P+GVVSVCGRARQGKSF+LNQLLGRSSGFQVA THR
Sbjct: 39  VYCDEKGKFVMDPEAVAALQLVKGPVGVVSVCGRARQGKSFVLNQLLGRSSGFQVAPTHR 98

Query: 106 PCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYN 165
           PCTKGLW+WSAPLKRT LDGTEYNL+LLD+EGIDAYDQTGTYS QIFSLAVLLSSMFIYN
Sbjct: 99  PCTKGLWMWSAPLKRTGLDGTEYNLVLLDTEGIDAYDQTGTYSIQIFSLAVLLSSMFIYN 158

Query: 166 QMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNR 225
           QMGGIDE+A+DRLSLVT+MTKHIR+RASGG++T SELG FSP+FVWLLRDFYLDL EDNR
Sbjct: 159 QMGGIDEAALDRLSLVTEMTKHIRVRASGGRSTASELGHFSPVFVWLLRDFYLDLTEDNR 218

Query: 226 KITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQI 285
           KITPRDYLE+ALRPVQG GRD+++KN IR+SIRALFPDREC TLVRP++NE +LQRLDQ+
Sbjct: 219 KITPRDYLELALRPVQGGGRDVSSKNAIRESIRALFPDRECITLVRPVNNEKDLQRLDQL 278

Query: 286 SLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISS 345
            L+  RPEFR+GLDALTKFVF+RTRPKQ+GA+ LTGPVL G+T+S+LDAIN GAVPTISS
Sbjct: 279 PLNNFRPEFRSGLDALTKFVFDRTRPKQLGASTLTGPVLSGLTQSFLDAINTGAVPTISS 338

Query: 346 SWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGL 405
           SWQSVEEAECRRAYDSA +TY S+FDR KP EE A+ EAHE A++KA++V+NA AVG GL
Sbjct: 339 SWQSVEEAECRRAYDSAIDTYNSSFDRRKPAEEDAMREAHEDALKKAVSVFNASAVGAGL 398

Query: 406 ARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKV 465
           AR K+E LLQ   +KAFED+K+N ++EAD++CS+ IQSME K+R AC+  DA +D++V++
Sbjct: 399 ARSKFEKLLQTSLKKAFEDYKRNTFLEADLQCSNRIQSMESKIRTACNRPDAKLDDIVRL 458

Query: 466 LDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIED 525
           +DGL++EYE+  +GPGKW+KLATFLQQ   GP+L L +R I+ I +ER+SL LK  S +D
Sbjct: 459 IDGLLTEYESKSYGPGKWKKLATFLQQCLAGPVLYLFRRQIEHIDAERNSLRLKCSSNDD 518

Query: 526 NMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSK 585
            + LL+KQLE SE +++EYL+RY+++INDK+K++ DY+ RI  LQ ++  L E+  SLS 
Sbjct: 519 KLALLRKQLEASEGHRAEYLRRYEESINDKQKISRDYSGRIAELQTKSSKLEERCVSLSS 578

Query: 586 TVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQE 645
            +D+ K E  DWK KYD  L +QKA E ++ S+I  L+SR   +E RL+A REQA SAQE
Sbjct: 579 ALDNAKRESVDWKNKYDHNLLQQKADESKLKSQIASLESRVNISEGRLSAVREQAESAQE 638

Query: 646 EVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
           E  EWKRKY VAV EAK AL++AA+ QERT+K++Q+RED LR E +S L+EK
Sbjct: 639 EASEWKRKYEVAVSEAKTALQRAAVAQERTNKKVQEREDALRAELASQLSEK 690

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242091367|ref|XP_002441516.1| hypothetical protein SORBIDRAFT_09g028440 [Sorghum bicolor] gi|241946801|gb|EES19946.1| hypothetical protein SORBIDRAFT_09g028440 [Sorghum bicolor]

 Score =  970 bits (2508), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 452/696 (64%), Positives = 572/696 (82%), Gaps = 2/696 (0%)

Query: 20  PSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGR 79
           PS   ++  +  +   V GPARP+RL YCDEKGKF MDPEAVAALQLVK P+GVVSVCGR
Sbjct: 14  PSAGDAAPAMSGDGGAVAGPARPLRLAYCDEKGKFVMDPEAVAALQLVKGPVGVVSVCGR 73

Query: 80  ARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
           ARQGKSFILNQLLGRSSGFQVASTHRPCTKGLW+WS PLKRT LDGTEY+L+LLD+EGID
Sbjct: 74  ARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWIWSTPLKRTGLDGTEYSLVLLDTEGID 133

Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
           AYDQTGTYS QIFSLAVLLSSMFIYNQMGGIDE+A+DRLSLVT+MTKHIR+RASGG++T 
Sbjct: 134 AYDQTGTYSIQIFSLAVLLSSMFIYNQMGGIDEAALDRLSLVTEMTKHIRVRASGGRSTA 193

Query: 200 SELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRA 259
           SELGQFSP+FVWLLRDFYLDL EDNRKITPRDYLE+ALRPVQG GRD++AKN IR+SIRA
Sbjct: 194 SELGQFSPVFVWLLRDFYLDLTEDNRKITPRDYLELALRPVQGGGRDVSAKNAIRESIRA 253

Query: 260 LFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVL 319
           LFPDRECF LVRP+++E +LQRLDQ+ L   RP+FR+GLDA TKFV +RTRPKQ+GA+ +
Sbjct: 254 LFPDRECFPLVRPVNDEKDLQRLDQLPLSNFRPQFRSGLDAFTKFVLDRTRPKQLGASTM 313

Query: 320 TGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEV 379
           TGP+L G+T+S+LDAIN+GAVPTISSSWQSVEEAEC+RA+DSA +TY S+FD  K  EE 
Sbjct: 314 TGPILAGLTQSFLDAINSGAVPTISSSWQSVEEAECQRAFDSAVQTYNSSFDHKKHIEED 373

Query: 380 ALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSS 439
           +L EAHE A++KA++ +NA AVG G+AR K+E LL    +KAFED+K+N ++EAD++CS+
Sbjct: 374 SLREAHEDAMRKAISAFNASAVGTGVARTKFEKLLHSSLKKAFEDYKRNAFLEADLQCSN 433

Query: 440 AIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPIL 499
            +Q ME KLRA C+  DA +D+VV +LDGL++EYE++ +GP KW++LATFLQQ   GP+L
Sbjct: 434 KVQKMESKLRALCNRPDAKLDDVVTLLDGLLTEYESTAYGPVKWKRLATFLQQCLAGPVL 493

Query: 500 DLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLA 559
           DL +R ++ I +ER++L LK  S +D + LL+KQLE SE +++EY++RY++ +NDK+K++
Sbjct: 494 DLFRRQLEHIDAERNALRLKCNSSDDKLALLRKQLEASEGHRAEYVRRYEEVLNDKQKIS 553

Query: 560 DDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEI 619
            DY+ RI  LQ ++  L E+  SLS ++++ K E +DWK KYD  + +QKA E ++ S+I
Sbjct: 554 KDYSIRITELQTKSSKLEERCLSLSSSLETAKRECNDWKSKYDHGILQQKADESKLKSQI 613

Query: 620 EVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM 679
             L+SR + +E RL+A REQA SAQEE  EWKRKY VAV EAK AL++AA+ QERT+K++
Sbjct: 614 ASLESRVSISEGRLSATREQADSAQEEASEWKRKYEVAVSEAKTALQRAAVAQERTNKKV 673

Query: 680 QQREDVLREEFSSTLAEK--VLSYLSRSLSRARISA 713
           Q+RED LR E ++ L+EK   +S L   LS+  I A
Sbjct: 674 QEREDALRAELANQLSEKEEEISRLHAKLSQTEIHA 709

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

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	716
TAIR|locus:2161358	1082	AT5G46070 [Arabidopsis thalian	0.972	0.643	0.719	1.2e-271
UNIPROTKB|F1N9J3	623	GBP7 "Uncharacterized protein"	0.703	0.808	0.297	5.4e-59
RGD|1561523	558	Mpa2l "macrophage activation 2	0.497	0.637	0.351	1.1e-58
ZFIN|ZDB-GENE-070705-98	645	si:ch211-209n20.1 "si:ch211-20	0.769	0.854	0.291	4e-58
ZFIN|ZDB-GENE-070912-618	630	gbp2 "guanylate binding protei	0.787	0.895	0.270	2.4e-53
UNIPROTKB|F1N1I1	629	LOC781225 "Uncharacterized pro	0.765	0.871	0.287	3.8e-53
ZFIN|ZDB-GENE-041210-233	618	si:dkey-61p9.3 "si:dkey-61p9.3	0.539	0.624	0.340	8e-53
UNIPROTKB|F6PPP4	579	Bt.37579 "Uncharacterized prot	0.761	0.941	0.281	1.4e-52
ZFIN|ZDB-GENE-060531-46	618	gbp4 "guanylate binding protei	0.539	0.624	0.338	1.7e-52
UNIPROTKB|Q9H0R5	595	GBP3 "Guanylate-binding protei	0.75	0.902	0.283	2.7e-52

TAIR|locus:2161358 AT5G46070 [Arabidopsis thaliana (taxid:3702)]

 Score = 2612 (924.5 bits), Expect = 1.2e-271, P = 1.2e-271
 Identities = 501/696 (71%), Positives = 576/696 (82%)

Query:     2 MMKFFGKGKDSSPYXXXXXXXXXXXXXXXXXXXXVTGPARPIRLVYCDEKGKFRMDPEAV 61
             M  FFG+G   SP                     VTGP RPIRLVYCDEKGKFRMDPEAV
Sbjct:     1 MRSFFGRGGKDSPADSASPSPRSYPSTSPASSSAVTGPPRPIRLVYCDEKGKFRMDPEAV 60

Query:    62 AALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT 121
             A LQLVKEPIGVVSVCGRARQGKSFILNQLLGRS+GFQVASTH+PCTKGLWLWS+P+KRT
Sbjct:    61 ATLQLVKEPIGVVSVCGRARQGKSFILNQLLGRSNGFQVASTHKPCTKGLWLWSSPIKRT 120

Query:   122 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV 181
             ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMF+YNQMGGIDE+++DRLSLV
Sbjct:   121 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFVYNQMGGIDEASLDRLSLV 180

Query:   182 TQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQ 241
             TQMTKHIR++ASGG ++ SELGQFSPIFVWLLRDFYLDLVEDNRKI+PRDYLEIALRPVQ
Sbjct:   181 TQMTKHIRVKASGGTSSRSELGQFSPIFVWLLRDFYLDLVEDNRKISPRDYLEIALRPVQ 240

Query:   242 GSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDAL 301
             GSG DI AKNEIRDSIRALFPDRECFTLVRPL+NE +LQRLDQISL++LRPEF AGLDA 
Sbjct:   241 GSGGDIGAKNEIRDSIRALFPDRECFTLVRPLNNEKDLQRLDQISLEKLRPEFGAGLDAF 300

Query:   302 TKFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDS 361
             TKFVFE+TRPKQ+G TV+TGP+L+GIT+SYLDA+NNGAVPTI+SSWQSVEE ECRRAYDS
Sbjct:   301 TKFVFEKTRPKQLGGTVMTGPILVGITQSYLDALNNGAVPTITSSWQSVEETECRRAYDS 360

Query:   362 ATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKA 421
               E YM+ FD+SK PEE AL E HE AV+KALA++N+ AVG G ARKK+E LL K  +K 
Sbjct:   361 GVEAYMAAFDQSKAPEEGALREEHEEAVRKALAIFNSNAVGNGSARKKFEDLLHKDLKKK 420

Query:   422 FEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPG 481
             FED+KKN +MEAD+RC+S IQ ME++LRAACH+S+A++DNVVKVL+  ++EYE SCHGPG
Sbjct:   421 FEDYKKNAFMEADLRCTSTIQRMEKQLRAACHASNANMDNVVKVLEARLAEYEASCHGPG 480

Query:   482 KWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK 541
             KWQKL+ FLQQS EGPI DL KRLID I  E++SL +K+RS+ED MK LK+QL+DSERYK
Sbjct:   481 KWQKLSVFLQQSLEGPIYDLTKRLIDSIAIEKNSLAMKFRSVEDAMKHLKQQLDDSERYK 540

Query:   542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY 601
              EY KRYD++ NDKKKL D Y  RI  LQGEN SL E+ S+L KTV+S K EI +W R Y
Sbjct:   541 LEYQKRYDESNNDKKKLEDIYRERITKLQGENSSLNERCSTLVKTVESKKEEIKEWIRNY 600

Query:   602 DQVLTKQKAMEDQVCSEIEVLKSRSTXXXXXXXXXXXXXXXXXXXVEEWKRKYGVAVREA 661
             DQ++ KQKA+++Q+ SE+EVL++RST                    +EWKRKY  AV EA
Sbjct:   601 DQIVLKQKAVQEQLSSEMEVLRTRSTTSEARVAAAREQAKSAAEETKEWKRKYDYAVGEA 660

Query:   662 KAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK 697
             ++AL+KAA VQER+ KE Q RED LREEFS TLA K
Sbjct:   661 RSALQKAASVQERSGKETQLREDALREEFSITLANK 696

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0006955 "immune response" evidence=ISS

GO:0009507 "chloroplast" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA

GO:0000911 "cytokinesis by cell plate formation" evidence=RCA

UNIPROTKB|F1N9J3 GBP7 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 570 (205.7 bits), Expect = 5.4e-59, Sum P(2) = 5.4e-59
 Identities = 159/535 (29%), Positives = 270/535 (50%)

Query:    39 PARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGF 98
             PA P+ LV   +  K  ++PEA+A L+ + +P+ VV++ G  R GKSF++N+L  + +GF
Sbjct:    20 PA-PLCLVENSDGNKLSVNPEALAVLRGITQPVVVVAIAGPYRTGKSFLMNRLAKQRTGF 78

Query:    99 QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVL 157
              +  T R  TKG+W+W  P    A  G    L+LLD+EG+ D      +    IF+LA+L
Sbjct:    79 PLGPTVRAETKGIWMWCLPHPSQA--GVA--LVLLDTEGLGDPNKGDNSNDAWIFTLALL 134

Query:   158 LSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFY 217
              SS  +YN MG ID+  +D+L LVT++T HIR+R        +E  +  P FVW +RDF 
Sbjct:   135 FSSTLVYNSMGTIDQQGLDQLRLVTELTNHIRVRVDDPDPA-AEFSRVFPSFVWTVRDFT 193

Query:   218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
             L L E  R +T  +YLE ALR   G+GR +   NE+R  +RA F  R+ F L RP ++ N
Sbjct:   194 LQLREGKRLLTEDEYLEDALRLKPGNGRMVQEHNEMRRCLRAFFTHRKLFVLERPTADAN 253

Query:   278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAIN 336
              L RL+++  D L+P FR   DA  + ++E+   K + G   +TG +L  + E Y+D I 
Sbjct:   254 -LARLEEVREDELQPRFRQQADAFCQHIWEKAPVKMLPGGRQVTGTMLASLVEKYVDTIV 312

Query:   337 NGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAHEAAVQKAL 393
              G VP + S+  ++       A   A   Y    ++    P +  A L + H    ++A+
Sbjct:   313 KGKVPCVESAVTALARTRNTEAVAEAVAEYRKGMEQDLVLPTDSRAVLVDVHRRWERRAV 372

Query:   394 AVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAI----QSMERKLR 449
              ++ + A       + Y+  L +    A E+  +     ++ +C   +    Q++ER+L+
Sbjct:   373 TLFLSHAFADN--ERTYQCQLMRELEAAKEEFCRRNEEASEQQCQKVLRELWQNVERRLQ 430

Query:   450 AACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQK----LATFLQQSSE-GPILDLVKR 504
                +++          L  ++ +Y+     PGK  K    L  FL++       L     
Sbjct:   431 CGDYAAPGGAQLFQDDLGYVLEKYKW---WPGKGVKADAVLEVFLREREPLAQALHATDA 487

Query:   505 LIDQIGSERSSLMLKYRSI-EDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKL 558
              +  +  +R +   K  ++ E  +  LK+Q    +R   E+ ++ +  + ++++L
Sbjct:   488 QLVMMERQREAAAAKEAAVREAEVACLKEQ----QRSLEEHCRQLEQRLLEEQRL 538

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

RGD|1561523 Mpa2l "macrophage activation 2 like" [Rattus norvegicus (taxid:10116)]

 Score = 536 (193.7 bits), Expect = 1.1e-58, Sum P(3) = 1.1e-58
 Identities = 130/370 (35%), Positives = 207/370 (55%)

Query:    36 VTGPAR-PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR 94
             VT P   PI LV  +   +  ++ +A+  L  + +P+ VV++ G  R GKS+++N L G+
Sbjct:     1 VTQPQMAPICLVE-NHNERLSVNQKAIEILDKISQPVVVVAIVGLYRTGKSYLMNCLAGQ 59

Query:    95 SSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFS 153
             + GF + ST +  TKG+W+W  P         ++ L+LLD+EG+ D         + IF+
Sbjct:    60 NHGFPLGSTVQSQTKGIWMWCVPHPTKP----KHTLVLLDTEGLGDVEKGDPKNDSWIFA 115

Query:   154 LAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS---GGKTTPSELGQFSPIFV 210
             LAVLLSS F+YN +  I+  A+++L  VT++TK IR R+S    G    +E   F P FV
Sbjct:   116 LAVLLSSTFVYNSLSTINHQALEQLYYVTELTKLIRARSSPNPDGIKNSTEFVSFFPDFV 175

Query:   211 WLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLV 270
             W +RDF L+L  + + IT  +YLE AL+ + G+   I A N  R+ IR  FP+R+CF   
Sbjct:   176 WTVRDFMLELTLNGKNITSDEYLENALKLIPGNSPRIQASNLPRECIRQFFPNRKCFVFD 235

Query:   271 RPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATV-LTGPVLIGITE 329
             RP  ++  LQ+L+ IS D+L P FR G  A   ++F   + K +   + +TG  L  +  
Sbjct:   236 RPTHDKELLQKLETISEDQLDPNFREGTKAFVSYIFTYAKMKTLREGIKVTGNRLGTLVT 295

Query:   330 SYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEVA--LGEAHE 386
             +Y+DAIN+GAVP +  +  ++ + E   A   A + Y      R + P +    L + H 
Sbjct:   296 TYVDAINSGAVPCLDDAVTTLAQRENSVAVQKAVDHYSEQMAQRLRLPTDTLQELLDEHT 355

Query:   387 AAVQKALAVY 396
             A  ++A++V+
Sbjct:   356 ACEKEAISVF 365

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

ZFIN|ZDB-GENE-070705-98 si:ch211-209n20.1 "si:ch211-209n20.1" [Danio rerio (taxid:7955)]

 Score = 597 (215.2 bits), Expect = 4.0e-58, P = 4.0e-58
 Identities = 169/580 (29%), Positives = 290/580 (50%)

Query:    41 RPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQV 100
             +P+ L+  D  GK  + P A+  LQ +++P+ VV+V G  R GKS+++N L G+ +GF +
Sbjct:     3 KPVCLINTDSDGKLCVQPAALQVLQQIQQPVVVVAVVGLYRTGKSYLMNHLAGKQTGFAL 62

Query:   101 ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLS 159
               T    TKG+W+W  P       GT   L+LLD+EG+ D       + T IF LAVLLS
Sbjct:    63 GGTIESKTKGIWMWCVP--HPTKTGT--TLVLLDTEGLGDVEKGDSKHDTNIFCLAVLLS 118

Query:   160 SMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPS-ELGQFSPIFVWLLRDFYL 218
             S  +YN  G ID  AI+ L  VT++T+ I++++S      S E  +F P F+W +RDF L
Sbjct:   119 STLVYNSSGTIDNRAIEELQYVTELTECIKVKSSDEDVDDSTEFVKFFPSFIWSVRDFTL 178

Query:   219 DLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENE 278
             +   D +  T  +YLE AL+   G+ + I + N  R+ I+  FP R CFT   P + E +
Sbjct:   179 ERKIDGKDATEDEYLEFALKLKPGTSKKITSFNLPRECIQKFFPTRTCFTFPFPTAPE-K 237

Query:   279 LQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV--GATVLTGPVLIGITESYLDAIN 336
             +  L+ +S   L  EF        KFVF+++  K++  G TV TG VL  +T+ Y++ I+
Sbjct:   238 MSTLESLSPADLSTEFLEVTKRFCKFVFDKSEVKRLKDGHTV-TGRVLGNLTKMYVNTIS 296

Query:   337 NGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK---PPEEVALGEAHEAAVQKAL 393
             +GAVP + ++  ++ + E   A     E Y    ++ K   P E   +   H+    KA 
Sbjct:   297 SGAVPCLENAVIAMAQIENVAATQEGLEVYQRGMEKVKCSFPLELEQVSSEHQRLSSKAT 356

Query:   394 AVYNAGAVGV--GLARKKYEGLLQKFFRKAF-EDHKKNVYMEADIRCSSAIQSMERKLRA 450
               + A +     G   K  EG + K F +   ++ + +V    D+  S +  +M  K + 
Sbjct:   357 QAFMARSFKDTDGKHLKVLEGKINKLFNEYLCQNEQASVKKCEDLLLSLSA-TMTEKHKQ 415

Query:   451 ACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQK-LATFLQQSS--EGPILDLVKRLID 507
               ++     D   K L+ ++  Y++      + +  L  FL+Q S     IL   K+L +
Sbjct:   416 GFYAKPGGYDVFCKDLEDIVKTYKSQAKNEVQAEMVLDKFLKQKSVDSKAILQADKKLTE 475

Query:   508 Q---IGSERSSLMLKYRSI---EDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADD 561
             +   I  E    +L  + I   E+  + L +++E  ++   E +K+  + + ++ K   +
Sbjct:   476 KEKKIKEEMEKAVLLQQEIKAKEETQRQLMEKMEAEKKSNEERIKQMKEKMEEEMKQQRE 535

Query:   562 YTSR-INNLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
                R +++   E  +L +K     +  D +  E+ ++KR+
Sbjct:   536 EAQRALDSKLREQAALLDKG--FQEKADMMSKEMKEFKRQ 573

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

ZFIN|ZDB-GENE-070912-618 gbp2 "guanylate binding protein 2" [Danio rerio (taxid:7955)]

 Score = 552 (199.4 bits), Expect = 2.4e-53, P = 2.4e-53
 Identities = 159/588 (27%), Positives = 283/588 (48%)

Query:    42 PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
             P+ L+  DE GK  +  EA   L  + EP+ VVSV G  R GKS+++N+L G+ SGF + 
Sbjct:    11 PVCLIENDEFGKLCVKKEAKDILDEINEPVVVVSVVGLYRTGKSYLMNRLAGKQSGFALG 70

Query:   102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGT-YSTQIFSLAVLLSS 160
             ST    TKG+W+W  P       G  + L+LLD+EG+   D+    + T IF LAVLLSS
Sbjct:    71 STIESKTKGIWMWCVP--HPYKKG--HTLVLLDTEGLGDVDKGDERHDTWIFCLAVLLSS 126

Query:   161 MFIYNQMGGIDESAIDRLSL--VTQMTKHIRIRASGGKTTPS-ELGQFS---PIFVWLLR 214
               +YN +G ID  A+++L    VT++T++IR++A G +     E  +F    P FVW +R
Sbjct:   127 ALVYNSLGVIDNMALEKLQYPYVTELTENIRVKAEGNEVEDEDESAEFMRVFPSFVWAVR 186

Query:   215 DFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLS 274
             DF L+L   ++ IT  +YLE AL+P +G+   IA  N  R  +R  F  R+CF   RP S
Sbjct:   187 DFTLELKMGDKPITSDEYLESALKPKKGNSPQIAQYNLPRRCLREFFAPRKCFVFPRPAS 246

Query:   275 NENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLD 333
              + +++R++ ++ + L  EF    +    +++  T PK V G   +TG  L  + E Y++
Sbjct:   247 TQ-DMKRMEDLTEEELDSEFLQQANTFCSYIYNSTEPKTVKGGRTITGTALGNLAEVYVE 305

Query:   334 AINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSK-PPEEVALGEAHEAAVQK 391
             AI +G VP + ++  S+ + +  RA + A + YM+     ++ P +   L   H  A +K
Sbjct:   306 AIRSGKVPCLENAVVSLAKIQNVRAVEQALQIYMTEMLSMAQFPLDPEELSSIHTLAEKK 365

Query:   392 ALAVY-NAG-AVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLR 449
             A+  + N   +    + +++  G +   ++   + + +   M+           +E  + 
Sbjct:   366 AIEEFINMSFSDNDQIYQQELMGKIHNEYQDLCQQNHQASLMQCQEVLEDVFDPLEMNIS 425

Query:   450 AACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQK-LATFLQQSSE-GPILDLVKRLID 507
                +           +L  L S Y          ++ L  FL+   + G ++      + 
Sbjct:   426 NGSYLRPGGYREYRALLAQLTSSYRARTKSQIMSEEVLCMFLKGKEDVGNMILQADESLS 485

Query:   508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRI- 566
                 E+   MLK   ++   + L++Q    E+   +  + + + +N      +    RI 
Sbjct:   486 AAEQEKEVQMLKNEILQQRQRGLEEQNRLQEQAFKDMERTHQEHVNQIVHQMEREQERIR 545

Query:   567 -NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED 613
              +N +     L+E+ + L +     + E S  +++ + + T     E+
Sbjct:   546 RDNERVLEAKLKEREALLKQ---GFEEEASRMQKEINSLKTDMSKQEE 590

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|F1N1I1 LOC781225 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 550 (198.7 bits), Expect = 3.8e-53, P = 3.8e-53
 Identities = 168/584 (28%), Positives = 299/584 (51%)

Query:    42 PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
             PI LV  ++  +  ++P A+  L+ + +P+ VV++ G  R GKS+++N+L G++ GF + 
Sbjct:    10 PICLVR-NQNNQLTVNPRALKILEQISQPVVVVAIAGLYRTGKSYLMNRLAGQNHGFHLG 68

Query:   102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSS 160
             ST R  TKG+W+W  P          + L+LLD+EG+ D         + IF+LAVLLSS
Sbjct:    69 STVRSETKGIWMWYVPHPSKE----NHTLVLLDTEGLGDVEKGDSKNDSWIFALAVLLSS 124

Query:   161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP---SELGQFSPIFVWLLRDFY 217
              F+YN M  I+  A+++L  VT++T+ IR ++S         +E   F P F+W +RDF 
Sbjct:   125 TFVYNSMSTINHQALEQLHYVTELTELIRTKSSPSSNEEEGSAEFLSFFPDFIWTVRDFI 184

Query:   218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
             L+L  D   IT  +YLE AL+ + G    I   N  R+ IR  FP R+CF   RP ++  
Sbjct:   185 LELELDGYPITEDEYLENALKLIPGKDPKIQNSNMTRECIRKFFPKRKCFVFDRPTNDRK 244

Query:   278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV--GATVLTGPVLIGITESYLDAI 335
              L R+ ++S ++L   F+   +    ++F   +PK +  G TV TG  L  + E+Y+DAI
Sbjct:   245 LLLRVMELSDNQLDVNFQKQSEDFCSYIFTHAKPKTLREGITV-TGGGLGTLVEAYVDAI 303

Query:   336 NNGAVPTISSSWQSVEEAECRRAYDSATETYMSTF-DRSKPPEEVA--LGEAHEAAVQKA 392
             N+G VP + ++  ++ E E   A   A + Y      R   P +    L E H A  ++A
Sbjct:   304 NSGGVPCLENAVITLAERENSAAVQKAADHYSEQMTQRLNLPTDTLQELLEVHAACEKEA 363

Query:   393 LAVYNAGAV--GVGLARKKYEGLLQKFFRKAF--EDHKKNV-YMEADIRCSSAIQSMERK 447
             +A++   +      + +KK   +++K  + +F  ++ + +V Y EA+++  S  +S+ + 
Sbjct:   364 IAIFMERSFKDDKRMFQKKLVDIMEKM-KDSFMIQNEEASVKYYEAELKQLS--ESLMKS 420

Query:   448 LRAACHSSDASIDNVVKVLDGLISEYE-TSCHGPGKWQKLATFLQQSS--EGPILDLVKR 504
             +              ++  +    +Y+     G    Q L +FLQ  +  E  IL   + 
Sbjct:   421 ISGGTFFVPGGHSLYLEARNKFEQDYKLVPRKGVKANQVLQSFLQSQAGVEEAILQADQA 480

Query:   505 LIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTS 564
             L D      ++   K  + +   +LL+++ ++ E+ K E  +R     + K+ LA     
Sbjct:   481 LTDA-DKAMAAECAKKDAAKRKQELLREK-QNEEKQKMEAQER-----SFKENLAQ-LQE 532

Query:   565 RINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQ 608
             +++  + EN+ LRE+ + L   +   K  +++  +K  +VL+K+
Sbjct:   533 KMDR-ERENL-LREQQTMLEHKLKMQKELLTEGFKKEAEVLSKE 574

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

ZFIN|ZDB-GENE-041210-233 si:dkey-61p9.3 "si:dkey-61p9.3" [Danio rerio (taxid:7955)]

 Score = 547 (197.6 bits), Expect = 8.0e-53, P = 8.0e-53
 Identities = 136/399 (34%), Positives = 208/399 (52%)

Query:    41 RPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQV 100
             +P+ L+     GK  +   A+  LQ +++P+ VV+V G  R GKSF++N+L G+ +GF +
Sbjct:     3 KPVCLIDTGSDGKLCVQQAALQVLQQIQQPVVVVAVVGPYRTGKSFLMNRLAGKRTGFAL 62

Query:   101 ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLS 159
             +S  +P T+G+W+W  P    A  GT   L+LLD+EG+ D         T IFSL VLLS
Sbjct:    63 SSNIKPKTEGIWMWCVPHPTKA--GT--TLVLLDTEGLGDVEKGDSKRDTYIFSLTVLLS 118

Query:   160 SMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLD 219
             S  +YN  G ID  AI++L  VT++ +HI++         +E  +F P F+W LRDF L+
Sbjct:   119 STLVYNSWGTIDNLAIEQLQYVTELIEHIKVTPDEDADDCAEFAKFFPHFIWCLRDFTLE 178

Query:   220 LVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENEL 279
             L  D + +T  +YLE AL+   G+ + +   N  R+ IR  FP R CFT   P + E   
Sbjct:   179 LKLDGKDLTEDEYLEFALKLRPGTSKKVMMYNLPRECIRKFFPCRTCFTFPSPTTPEKR- 237

Query:   280 QRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAINNG 338
               L+ +S     PEF        KFVF+R+  KQ+ G   +TG VL  +T+ Y+D I++G
Sbjct:   238 SILESLSPAEFSPEFLEVTKRFCKFVFDRSEVKQLKGGHTVTGRVLGNLTKMYVDTISSG 297

Query:   339 AVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK---PPEEVALGEAHEAAVQKALAV 395
             AV  + ++  ++ + E   A     E Y    ++ K   P E   +   H+   + A   
Sbjct:   298 AVFCLENAVIAMAQIENEAATQEGLEVYQRGMEKLKSSFPLELEQVSSEHQRLSRMATQA 357

Query:   396 YNAGAVGV--GLARKKYEGLLQKFFRKAFEDHKKNVYME 432
             + A +     G   K  EG + K F  A+    K V +E
Sbjct:   358 FMARSFKDTDGKHLKALEGEIGKLF-DAYRSQNKQVGLE 395

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0042981 "regulation of apoptotic process" evidence=IEA

UNIPROTKB|F6PPP4 Bt.37579 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 520 (188.1 bits), Expect = 1.4e-52, Sum P(2) = 1.4e-52
 Identities = 163/579 (28%), Positives = 284/579 (49%)

Query:    42 PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
             PI LV  +   +  ++P A+  L+ + +P+ VV++ G  R GKS+++N+L G++ GF + 
Sbjct:     3 PICLVE-NRNNQLLVNPRALKILEQISQPVVVVAIAGLYRTGKSYLMNRLAGQNHGFCLG 61

Query:   102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSS 160
             ST +  TKG+W+W  P          + L+LLD+EG+ D         + IF+LAVLLSS
Sbjct:    62 STVQSETKGIWMWCVPHPSKE----NHTLVLLDTEGLGDVEKGDSKNDSWIFALAVLLSS 117

Query:   161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS--GGKTTPS-ELGQFSPIFVWLLRDFY 217
               IYN MG I+  A+++L  VT++T+ IRI++S        S E  +F P FVW +RDF 
Sbjct:   118 TCIYNSMGTINHQALEQLHYVTELTELIRIKSSPISDDVEDSVEFVRFFPDFVWTVRDFM 177

Query:   218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
             L+L  +   IT  +YLE AL+ + G+   I   N  R+ I+  FP R+CF   RP SN  
Sbjct:   178 LELKFNGNPITEDEYLENALKLIPGANHQIQNSNLPRECIKKFFPRRKCFVFDRPASNRK 237

Query:   278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAINN 337
             +L  L++I  + L   F+        +++   + K      +TG  L  + E+Y++AIN+
Sbjct:   238 QLLHLEEIPDNELDVNFKKQSKVFCSYIYTHAKTKTKEGITITGKRLGTLVEAYVNAINS 297

Query:   338 GAVPTISSSWQSVEEAECRRAYDSATETYMSTFDR--SKPPEEVA-LGEAHEAAVQKALA 394
             G+VP + ++  ++ + E   A   A + Y     +  S P + +  L E H A  ++A+A
Sbjct:   298 GSVPCLENAVTTLAQLENSAAVQKAADHYSEQMTKRLSLPTDTLQELLEVHAACEKEAIA 357

Query:   395 VYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIR-CSSAIQSMERKLRAACH 453
             V+   +      +K ++  L    +K  ED       EA ++ C + ++ +   L  +  
Sbjct:   358 VFMKHSFKD--EKKDFQKKLLVMIKKKKEDFLLQDE-EASVKYCQAELKKLSDPLMKSIS 414

Query:   454 SSDASIDNVVKVLDGLISEYETSCHG-PGKWQK----LATFLQQSS--EGPILDLVKRLI 506
                 S     +      + +E +    P K  K    L +FLQ  +  +  IL   + L 
Sbjct:   415 EGTFSFPGGHRRYLEARNRFEENYKLIPRKGVKANHVLQSFLQSQAGVQAAILQADQALA 474

Query:   507 DQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRI 566
             D +         K ++ E    LL ++L D  +      + + ++I    KL + +    
Sbjct:   475 D-VDKAMKEEYTKRQAAEMKKDLLIQKLNDKMQKMEAQGRSHKESI---AKLKEKFM--- 527

Query:   567 NNLQGENISLREKSSSLSKTVDSLKNEIS-DWKRKYDQV 604
               L+ EN+ LRE+   L   +   +  ++ D+++K D++
Sbjct:   528 --LERENL-LREQEELLEYKLKVQRELLNVDFQKKSDEL 563

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

ZFIN|ZDB-GENE-060531-46 gbp4 "guanylate binding protein 4" [Danio rerio (taxid:7955)]

 Score = 544 (196.6 bits), Expect = 1.7e-52, P = 1.7e-52
 Identities = 135/399 (33%), Positives = 210/399 (52%)

Query:    41 RPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQV 100
             +P+ L+     GK  +   A+  LQ +++P+ VV+V G  R GKSF++N+L G+ +GF +
Sbjct:     3 KPVCLIDTGSDGKLCVQQAALQVLQQIQQPVVVVAVVGLYRTGKSFLMNRLAGKRTGFAL 62

Query:   101 ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTY-STQIFSLAVLLS 159
             +S  +P T+G+W+W  P    A  GT   L+LLD+EG++  ++  +   T IFSLAVLLS
Sbjct:    63 SSNIKPKTEGIWMWCMPHPTKA--GT--TLVLLDTEGLEDVEKGDSKRDTYIFSLAVLLS 118

Query:   160 SMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLD 219
             S  +YN  G ID  A++ L  VT++ +HI++         +   +F P F+W LRDF L+
Sbjct:   119 STLVYNSRGVIDNKAMEELQYVTELIEHIKVTPDEDADDCTAFAKFFPHFIWCLRDFTLE 178

Query:   220 LVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENEL 279
             L  D + +T  +YLE AL+   G+ + +   N  R+ IR  FP R CFT   P + E   
Sbjct:   179 LKLDGKDLTEDEYLEFALKLRPGTSKKVMMYNLPRECIRKFFPCRTCFTFPSPTTPEKR- 237

Query:   280 QRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAINNG 338
               L+ +S   L PEF        KFVF+R+  KQ+ G   +TG VL  +T+ Y+D I++G
Sbjct:   238 SILESLSPAELDPEFLEVTKRFCKFVFDRSEVKQLKGGHTVTGRVLGNLTKMYVDTISSG 297

Query:   339 AVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK---PPEEVALGEAHEAAVQKALAV 395
             AV  + ++  ++ + E   A     E Y    ++ K   P E   +   H+     A   
Sbjct:   298 AVFCLENAVIAMAQIENEAATQEGLEVYQRGMEKLKSSFPLELEQVSSEHQRLSSMATQA 357

Query:   396 YNAGAVGV--GLARKKYEGLLQKFFRKAFEDHKKNVYME 432
             + A +     G   K  EG + K F  A+    K V +E
Sbjct:   358 FMARSFKDTDGKHLKALEGEMGKLF-DAYRSQNKQVGLE 395

GO:0003924 "GTPase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0042981 "regulation of apoptotic process" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|Q9H0R5 GBP3 "Guanylate-binding protein 3" [Homo sapiens (taxid:9606)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 165/581 (28%), Positives = 298/581 (51%)

Query:    42 PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
             P+ L+  +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G++ GF + 
Sbjct:    10 PMCLIE-NTNGELVANPEALKILSAITQPVVVVAIVGLYRTGKSYLMNKLAGKNKGFSLG 68

Query:   102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSS 160
             ST +  TKG+W+W  P  +      E+ L+LLD+EG+ D         + IF+LAVLLSS
Sbjct:    69 STVKSHTKGIWMWCVPHPKKP----EHTLVLLDTEGLGDVKKGDNQNDSWIFTLAVLLSS 124

Query:   161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT---PSELGQFSPIFVWLLRDFY 217
               +YN MG I++ A+D+L  VT++T  IR ++S  +      ++   F P FVW LRDF 
Sbjct:   125 TLVYNSMGTINQQAMDQLYYVTELTHRIRSKSSPDENENEDSADFVSFFPDFVWTLRDFS 184

Query:   218 LDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNEN 277
             LDL  D + +TP +YLE +L+  QG+ +     N  R  IR  FP ++CF    P+ +  
Sbjct:   185 LDLEADGQPLTPDEYLEYSLKLTQGTSQKDKNFNLPRLCIRKFFPKKKCFVFDLPI-HRR 243

Query:   278 ELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAIN 336
             +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  +  +Y++AI+
Sbjct:   244 KLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIKVNGPRLESLVLTYINAIS 303

Query:   337 NGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAHEAAVQKAL 393
              G +P + ++  ++ + E   A   A   Y     +    P E +  L + H  + ++A 
Sbjct:   304 RGDLPCMENAVLALAQIENSAAVQKAIAHYDQQMGQKVQLPAETLQELLDLHRVSEREAT 363

Query:   394 AVYNAGAV-GVG-LARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQ----SMERK 447
              VY   +   V  L +KK    L K   K  +  K+N    +D RCS+ +Q     +E +
Sbjct:   364 EVYMKNSFKDVDHLFQKKLAAQLDK---KRDDFCKQNQEASSD-RCSALLQVIFSPLEEE 419

Query:   448 LRAACHSSDASIDNVVKVLDGLISEY-ETSCHGPGKWQKLATFLQQSSEGPILDLVKRLI 506
             ++A  +S        ++ L  L  +Y E    G    + L T+L+  S+  + D + +  
Sbjct:   420 VKAGIYSKPGGYCLFIQKLQDLEKKYYEEPRKGIQAEEILQTYLK--SKESVTDAILQT- 476

Query:   507 DQIGSERSSLM----LKYRSIEDNMKLLKKQ-------LEDSERYKSEYLKRYDDAIN-D 554
             DQI +E+   +    +K  S + + K++++        +E+ E+   E++K+  + +  +
Sbjct:   477 DQILTEKEKEIEVECVKAESAQASAKMVEEMQIKYQQMMEEKEKSYQEHVKQLTEKMERE 536

Query:   555 KKKLADDYTSRINN-LQGENISLREKSSSLSKTVDSLKNEI 594
             + +L ++    + + LQ +   L+E+    S     L+NEI
Sbjct:   537 RAQLLEEQEKTLTSKLQEQARVLKERCQGEST---QLQNEI 574

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0051607 "defense response to virus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016020 "membrane" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.5	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	716
cd01851	224	cd01851, GBP, Guanylate-binding protein (GBP) fami	2e-63
pfam02263	264	pfam02263, GBP, Guanylate-binding protein, N-termi	1e-62
pfam02841	297	pfam02841, GBP_C, Guanylate-binding protein, C-ter	5e-29
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-04
PRK01156	895	PRK01156, PRK01156, chromosome segregation protein	1e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	5e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	0.001
pfam08764	282	pfam08764, Coagulase, Staphylococcus aureus coagul	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.003
PHA02562	562	PHA02562, 46, endonuclease subunit; Provisional	0.003

>gnl|CDD|206650 cd01851, GBP, Guanylate-binding protein (GBP) family (N-terminal domain)

 Score =  210 bits (537), Expect = 2e-63
 Identities = 81/245 (33%), Positives = 112/245 (45%), Gaps = 22/245 (8%)

Query: 65  QLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALD 124
             V  P+ VVSV G    GKSF+LN L G S GF V  T +  TKG+W+WS P K T  D
Sbjct: 1   LDVGFPVVVVSVFGSQSSGKSFLLNHLFGTSDGFDVMDTSQQTTKGIWMWSDPFKDT--D 58

Query: 125 GTEYNLLLLDSEGIDAYDQT-GTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQ 183
           G ++ +LLLD+EG D  ++       ++F+LA LLSS+ IYN    I    +D+L  + +
Sbjct: 59  GKKHAVLLLDTEGTDGRERGEFENDARLFALATLLSSVLIYNMWQTILGDDLDKLMGLLK 118

Query: 184 MTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGS 243
                    + G        +  P+ ++++RDF      +   +T            + S
Sbjct: 119 TAL-----ETLGLAGLHNFSKPKPLLLFVVRDFTGPTPLEGLDVT------------EKS 161

Query: 244 GRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTK 303
              I   N+I  SIR  F    CF L  P      LQ      L  L PEFR  L AL +
Sbjct: 162 ETLIEELNKIWSSIRKPFTPITCFVLPHPGLLHKLLQN--DGRLKDLPPEFRKALKALRQ 219

Query: 304 FVFER 308
             F  
Sbjct: 220 RFFSS 224

Guanylate-binding protein (GBP), N-terminal domain. 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 (GAP) cannot approach. Length = 224

>gnl|CDD|111185 pfam02263, GBP, Guanylate-binding protein, N-terminal domain

 Score =  209 bits (535), Expect = 1e-62
 Identities = 92/261 (35%), Positives = 141/261 (54%), Gaps = 8/261 (3%)

Query: 51  KGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG 110
             +  ++ EA+  L  + +P+ VV++ G  R GKS+++N L G+ +GF + ST    TKG
Sbjct: 1   DHQLELNEEALEILSAITQPVVVVAIVGLYRTGKSYLMNFLAGKLTGFSLGSTVESETKG 60

Query: 111 LWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLLSSMFIYNQMGG 169
           +W+W  P         ++ L+LLD+EG+ D           IF+LA LLSS F+YN    
Sbjct: 61  IWMWCVPHPN----KPKHTLVLLDTEGLGDVEKSDPKNDAWIFALATLLSSTFVYNSSQT 116

Query: 170 IDESAIDRLSLVTQMTKHIRIRAS---GGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRK 226
           I++ A+ +L LVT++T+ IR ++S   G     +E   F P FVW +RDF L L  D   
Sbjct: 117 INQQALQQLHLVTELTELIRAKSSPRYGRVADSAEFVSFFPDFVWTVRDFSLPLELDGGP 176

Query: 227 ITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQIS 286
           IT  +YLE  L+  QG   ++   N  R+ IR+ FP R+CF   RP  +     +L+ + 
Sbjct: 177 ITGDEYLENRLKLSQGQHEELQNFNLPRECIRSFFPKRKCFLFDRPGLDVALNPQLEGLR 236

Query: 287 LDRLRPEFRAGLDALTKFVFE 307
            D L PEF+  L     ++F 
Sbjct: 237 EDELDPEFQQQLREFCSYIFS 257

Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP. Length = 264

>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain

 Score =  117 bits (294), Expect = 5e-29
 Identities = 70/309 (22%), Positives = 128/309 (41%), Gaps = 37/309 (11%)

Query: 315 GATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD-RS 373
           G   +TGP L  + ++Y+DAIN+GAVP + ++  ++ + E   A   A   Y      + 
Sbjct: 1   GGITVTGPRLGSLVQTYVDAINSGAVPCLENAVLALAQIENSAAVQKAIAHYEQQMAQKV 60

Query: 374 KPPEEV--ALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYM 431
           K P E    L + H    ++A+AV+   +       ++++  L +   K  +D  K    
Sbjct: 61  KLPTETLQELLDLHRDCEKEAIAVFMKRSFKD--ENQEFQKELVELLEKKKDDFLKQNEE 118

Query: 432 EADIRCSSAIQS----MERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLA 487
            +   CS+ +Q     +E K+     S        ++  D L ++Y      P K  K  
Sbjct: 119 ASSKYCSALLQDLSEPLEEKISQGTFSKPGGYKLFLEERDKLEAKYNQV---PRKGVKAE 175

Query: 488 TFLQ---QSSEG---PILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLLKKQLEDSE 538
             LQ    S E     IL   + L      I +ER+    K  + E   +LL+++ ++ E
Sbjct: 176 EVLQEFLNSKEAVEEAILQTDQALTAKEKAIEAERA----KAEAAEAEQELLREKQKEEE 231

Query: 539 RYKSEYLKRYDDAI--------NDKKKLADDYTSRINN-LQGENISLREKSSSLSKTVDS 589
           +      + Y + +         +++KL  +    + + LQ +   L+E         +S
Sbjct: 232 QMMEAQERSYQEHVKQLIEKMEAEREKLLAEQERMLEHKLQEQEELLKE---GFKTEAES 288

Query: 590 LKNEISDWK 598
           L+ EI D K
Sbjct: 289 LQKEIQDLK 297

Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP. Length = 297

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 52.8 bits (127), Expect = 6e-07
 Identities = 41/203 (20%), Positives = 87/203 (42%), Gaps = 11/203 (5%)

Query: 523 IEDNMKLLKKQLEDSERYK--SEYLKRYDDA-----INDKKKLADDYTSRINNLQGENIS 575
           +E  ++ L++Q E +ERY+     L+  + A     + + +K  ++    ++ L+ E   
Sbjct: 198 LEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELEE 257

Query: 576 LREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEAR 632
           L+E+     K ++ LK+E+ + + + +++   L + K   +++  EI +L+ R    E  
Sbjct: 258 LQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELENE 317

Query: 633 LAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS 692
           L    E+    +E++E  K +           LE+     E   +E++++   L EE   
Sbjct: 318 LEELEERLEELKEKIEALKEELE-ERETLLEELEQLLAELEEAKEELEEKLSALLEELEE 376

Query: 693 TLAEKVLSYLSRSLSRARISAEL 715
                           A I  EL
Sbjct: 377 LFEALREELAELEAELAEIRNEL 399

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 52.8 bits (127), Expect = 6e-07
 Identities = 35/193 (18%), Positives = 83/193 (43%), Gaps = 10/193 (5%)

Query: 502 VKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK---SEYLKRYDDAINDKKKL 558
           +K  +  +      L  +   +E  ++ LK++L   E         L+  ++ + + ++ 
Sbjct: 693 LKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEE 752

Query: 559 ADDYTSRINNLQGENISLREKSSSLSKTVDSLKN---EISDWKRKYDQVLTKQKAMEDQV 615
            ++   R+  L+ E  SL E  + L + ++ L+     + +   + ++ L + +   D +
Sbjct: 753 LEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDAL 812

Query: 616 CSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERT 675
             E+E L+ R    E  +    E+    +E+++E +      + E +  LE+     E  
Sbjct: 813 ERELESLEQRRERLEQEIEELEEEIEELEEKLDELEE----ELEELEKELEELKEELEEL 868

Query: 676 SKEMQQREDVLRE 688
             E ++ ED L+E
Sbjct: 869 EAEKEELEDELKE 881

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 50.8 bits (122), Expect = 3e-06
 Identities = 36/199 (18%), Positives = 90/199 (45%), Gaps = 10/199 (5%)

Query: 506 IDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSR 565
           ++++  E      +   +   ++ L+++LE+     SE     ++ I + +K      + 
Sbjct: 241 LEELQEELKEAEEELEELTAELQELEEKLEELRLEVSEL----EEEIEELQKELYALANE 296

Query: 566 INNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCS---EIEVL 622
           I+ L+ +   LRE+ ++L + ++ L+ ++ + + K D++  +   +E+++     E+E L
Sbjct: 297 ISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESL 356

Query: 623 KSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM-QQ 681
           ++     EA L     +    +E++E  + K   A  E + A     I +     E  + 
Sbjct: 357 EAELEELEAELEELESRLEELEEQLETLRSKV--AQLELQIASLNNEIERLEARLERLED 414

Query: 682 REDVLREEFSSTLAEKVLS 700
           R + L++E    L +   +
Sbjct: 415 RRERLQQEIEELLKKLEEA 433

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 50.1 bits (120), Expect = 4e-06
 Identities = 37/217 (17%), Positives = 93/217 (42%), Gaps = 15/217 (6%)

Query: 511 SERSSLMLKYRS-IEDNMKLLKKQLEDSE-------RYKSEYLKRYDDAINDKKKLADDY 562
           ++ +S +L+ R  IE+  + +++  E            + E L+  ++ +   +K  ++ 
Sbjct: 666 AKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKE-LEELEEELEQLRKELEEL 724

Query: 563 TSRINNLQGENISLREKSSSLSKTVDSLKNEISDW---KRKYDQVLTKQKAMEDQVCSEI 619
           + +I+ L+ +   L  +   L + +  L  E+++      + ++ L + +    +  +EI
Sbjct: 725 SRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEI 784

Query: 620 EVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM 679
           E L+++    +  L A RE     + E+     +    +RE   +LE+     ER  +++
Sbjct: 785 EELEAQIEQLKEELKALREALDELRAELTLLNEEAA-NLRERLESLERRIAATERRLEDL 843

Query: 680 QQREDVLREEFSSTLAEKVLSYLSRSLSRARISAELL 716
           +++ + L E+  S      +  L   +       E L
Sbjct: 844 EEQIEELSEDIES--LAAEIEELEELIEELESELEAL 878

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 48.1 bits (115), Expect = 2e-05
 Identities = 44/233 (18%), Positives = 84/233 (36%), Gaps = 39/233 (16%)

Query: 521 RSIEDNMKLLKKQLEDSERYKS---------------------EYLKRYDDAINDKKKLA 559
             +E  +K L++Q E +ERYK                      E L+   + + + ++  
Sbjct: 196 NELERQLKSLERQAEKAERYKELKAELRELELALLVLRLEELREELEELQEELKEAEEEL 255

Query: 560 DDYTSRINNLQG-------ENISLREKSSSLSKTVDSLKNEISDW---KRKYDQVLTKQK 609
           ++ T+ +  L+        E   L E+   L K + +L NEIS     K+   + L   +
Sbjct: 256 EELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLE 315

Query: 610 AMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEW------KRKYGVAVREAKA 663
              +++ +++E L+S+       LA   E+    +EE+E               +     
Sbjct: 316 RQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLE 375

Query: 664 ALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAELL 716
            LE+          +++ +   L  E      E  L  L     R +   E L
Sbjct: 376 ELEEQLETLRSKVAQLELQIASLNNEIER--LEARLERLEDRRERLQQEIEEL 426

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 46.6 bits (111), Expect = 4e-05
 Identities = 39/167 (23%), Positives = 74/167 (44%), Gaps = 13/167 (7%)

Query: 506 IDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK--SEYLKRYDDAINDKKKLADDYT 563
           I ++      L  +   +E+ +K LK+  E +E Y   SE+ + Y D + + +K      
Sbjct: 261 IRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLE 320

Query: 564 SRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED--QVCSEIEV 621
             IN ++     L EK   L +    LK ++ + +++ +++  + +  E+      E+E 
Sbjct: 321 EEINGIEERIKELEEKEERLEE----LKKKLKELEKRLEELEERHELYEEAKAKKEELER 376

Query: 622 LKSRSTAAE-ARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEK 667
           LK R T     +L    E+   A+EE+EE   K    +      L+K
Sbjct: 377 LKKRLTGLTPEKLEKELEELEKAKEEIEEEISK----ITARIGELKK 419

Length = 880

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 46.2 bits (110), Expect = 6e-05
 Identities = 40/222 (18%), Positives = 93/222 (41%), Gaps = 13/222 (5%)

Query: 500 DLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDD---AINDKK 556
            L+K   +  G E   L+ +  ++E   + +++QL   E    +  +   +    + + +
Sbjct: 215 ALLKEKREYEGYE---LLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIE 271

Query: 557 KLADDYTSRINNL-QGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQV 615
           +L ++   +I +L + E + ++EK   L   + SL+  I++ +R+ +    +   +E   
Sbjct: 272 QLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLE--- 328

Query: 616 CSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERT 675
            +EI+ L +     E  +   R++     EE  E K +      E +   ++ A  ++  
Sbjct: 329 -AEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDEL 387

Query: 676 SKEMQQREDVLREEFSSTLAEKVLSYLSRSLS--RARISAEL 715
               ++ E + RE          L    + LS   A ++A +
Sbjct: 388 KDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAI 429

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 40/196 (20%), Positives = 91/196 (46%), Gaps = 17/196 (8%)

Query: 519 KYRSIEDNMKLLKKQLEDSERYKSEYLKR---YDDAINDKKKLADDYTSRINNLQGENIS 575
            Y +   N+  + K+++       +++KR    ++ I +K+K  ++    IN +  E   
Sbjct: 159 DYENAYKNLGEVIKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPE 218

Query: 576 LREKSSSLSK---TVDSLKNEISDWKRKYDQVLTKQKAMED---QVCSEIEVLKSRSTAA 629
           LRE+   L K    ++ LK EI + +++ + +   ++ +E+   ++   IE LK      
Sbjct: 219 LREELEKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEEL 278

Query: 630 EARLAAAREQALSAQE--EVEEWKRKYGVAVREAKAAL----EKAAIVQERTSK--EMQQ 681
           E ++   +E    A+E  ++ E+  +Y   +RE +  L    E+   ++ER  +  E ++
Sbjct: 279 EEKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEE 338

Query: 682 REDVLREEFSSTLAEK 697
           R + L+++        
Sbjct: 339 RLEELKKKLKELEKRL 354

Length = 880

>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional

 Score = 45.3 bits (107), Expect = 1e-04
 Identities = 33/208 (15%), Positives = 84/208 (40%), Gaps = 26/208 (12%)

Query: 506 IDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAIN---DKKKLADDY 562
           I+   S  + +  +   +E  ++ ++    D + Y  + ++  ++  N   +K     + 
Sbjct: 582 IETNRSRSNEIKKQLNDLESRLQEIEIGFPDDKSYIDKSIREIENEANNLNNKYNEIQEN 641

Query: 563 TSRINNLQGENISLREKSSSLSKTVDSLK------NEISDWKRKYDQVLTKQKAMEDQVC 616
              I  L+G+  + +++ + +   +  LK      N+I D  +K  + L   KA   ++ 
Sbjct: 642 KILIEKLRGKIDNYKKQIAEIDSIIPDLKEITSRINDIEDNLKKSRKALDDAKANRARLE 701

Query: 617 SEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTS 676
           S IE+L++R      R+     + L + ++++    K    ++  + A +K+ +      
Sbjct: 702 STIEILRTRINELSDRI-NDINETLESMKKIK----KAIGDLKRLREAFDKSGV------ 750

Query: 677 KEMQQREDVLREEFSSTLAEKVLSYLSR 704
                   ++R+  S  +      YL  
Sbjct: 751 ------PAMIRKSASQAMTSLTRKYLFE 772

Length = 895

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 43.9 bits (104), Expect = 3e-04
 Identities = 44/271 (16%), Positives = 108/271 (39%), Gaps = 25/271 (9%)

Query: 439 SAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSE--G 496
           +A++    +L++     +  ++ + + L+ L    E         ++    L++  E   
Sbjct: 726 AALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELE 785

Query: 497 PILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKK 556
                ++  ++++  E      +  ++E  ++ L+++ E  E+   E  +  ++      
Sbjct: 786 EKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLD 845

Query: 557 KLADD---YTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED 613
           +L ++       +  L+ E   L  +   L   +  L+ E  + + +  ++ ++   ++ 
Sbjct: 846 ELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELK- 904

Query: 614 QVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE---------EWKRKYGVAVREAKA- 663
               EIE L+ R    EA+L     +    +EE+E         E +R+      E +A 
Sbjct: 905 ---EEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEIEAL 961

Query: 664 ------ALEKAAIVQERTSKEMQQREDVLRE 688
                 A+E+   V+ER  +   QRED+   
Sbjct: 962 GPVNLRAIEEYEEVEERYEELKSQREDLEEA 992

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 43.5 bits (103), Expect = 4e-04
 Identities = 32/192 (16%), Positives = 83/192 (43%), Gaps = 7/192 (3%)

Query: 525 DNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLS 584
             ++   ++LE+  +     L+  +D + + ++  ++   ++  L+ E  +L E+   L 
Sbjct: 677 AELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQ 736

Query: 585 KTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQ 644
             ++ L+ E+ + + + +++  + + +E+++   +E   ++       L   R+      
Sbjct: 737 SRLEELEEELEELEEELEELQERLEELEEEL-ESLEEALAKLKEEIEELEEKRQALQEEL 795

Query: 645 EEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSR 704
           EE+EE   +    +   +  LE     +ER  +E+++ E+ + E       E+ L  L  
Sbjct: 796 EELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEE------LEEKLDELEE 849

Query: 705 SLSRARISAELL 716
            L       E L
Sbjct: 850 ELEELEKELEEL 861

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 43.5 bits (103), Expect = 4e-04
 Identities = 53/282 (18%), Positives = 103/282 (36%), Gaps = 20/282 (7%)

Query: 439 SAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPI 498
             ++    +LR         I  + K L  L +E E       +  K  T L+   E   
Sbjct: 708 EELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELE 767

Query: 499 LDLVK--RLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKK 556
             L +    + +  +E   L  +   +++ +K L++ L++        L   ++   + +
Sbjct: 768 ERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDE----LRAELTLLNEEAANLR 823

Query: 557 KLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVC 616
           +  +    RI   +     L E+   LS+ ++SL  EI +            + + +++ 
Sbjct: 824 ERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEE-----------LEELIEELE 872

Query: 617 SEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVR---EAKAALEKAAIVQE 673
           SE+E L +   + E  LA  R +     EE+ E + K     R   E +  L +  +  E
Sbjct: 873 SELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLE 932

Query: 674 RTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAEL 715
                +   ++ L EE+S TL E                  L
Sbjct: 933 GLEVRIDNLQERLSEEYSLTLEEAEALENKIEDDEEEARRRL 974

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 35/186 (18%), Positives = 75/186 (40%), Gaps = 21/186 (11%)

Query: 500 DLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLA 559
            +  RL + I  + + L L+   +E  ++ L++Q  D +       K  ++    K++L 
Sbjct: 809 RIEARLRE-IEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELE 867

Query: 560 DDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEI 619
                 +  L+     L  +   L K  D L+ ++ + +RK ++     +A  ++    +
Sbjct: 868 ----EELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEE----LEAQIEKKRKRL 919

Query: 620 EVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM 679
             LK++  A E  L+   +     +E  EE            + +LE      +R  +E+
Sbjct: 920 SELKAKLEALEEELSEIEDPKGEDEEIPEE------------ELSLEDVQAELQRVEEEI 967

Query: 680 QQREDV 685
           +  E V
Sbjct: 968 RALEPV 973

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 5e-04
 Identities = 36/232 (15%), Positives = 93/232 (40%), Gaps = 21/232 (9%)

Query: 484 QKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSE 543
           +KL    ++  E  +   ++ L +++         +    ++ ++ LK +L + E  + E
Sbjct: 216 KKLEEIQEEQEEEELEQEIEALEERL--------AELEEEKERLEELKARLLEIESLELE 267

Query: 544 YLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQ 603
            LK  ++ + + ++L ++   +I  L+     + E           L+ E+   +   ++
Sbjct: 268 ALKIREEELRELERLLEELEEKIERLEELEREIEE-----------LEEELEGLRALLEE 316

Query: 604 VLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKA 663
           +    + ++      +E L+ +    E+ L    E+     + +EE  ++    + E + 
Sbjct: 317 LEELLEKLKSL-EERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEERLEELEK 375

Query: 664 ALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLSRARISAEL 715
            LEKA    ++  + +Q+ ++    E S+ L E              +  EL
Sbjct: 376 ELEKALERLKQLEEAIQELKE-ELAELSAALEEIQEELEELEKELEELEREL 426

Length = 908

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 42.0 bits (99), Expect = 0.001
 Identities = 34/192 (17%), Positives = 78/192 (40%), Gaps = 10/192 (5%)

Query: 512 ERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTS---RINN 568
           E + L+ K + +   ++ L+++L   E    E  +  ++A  + ++L  +       +  
Sbjct: 226 ELALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEE 285

Query: 569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLK---SR 625
           LQ E + L+E+   L   +  L+  + + + + +++  + + +++    +IE LK     
Sbjct: 286 LQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKE----KIEALKEELEE 341

Query: 626 STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDV 685
                  L     +   A+EE+EE        + E   AL +     E    E++   + 
Sbjct: 342 RETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEE 401

Query: 686 LREEFSSTLAEK 697
           L+ E  S     
Sbjct: 402 LKREIESLEERL 413

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.4 bits (100), Expect = 0.001
 Identities = 36/186 (19%), Positives = 81/186 (43%), Gaps = 9/186 (4%)

Query: 503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDY 562
           +R I++    R  L  +Y  +++ ++ L+ +LE+      +      D + D ++  +  
Sbjct: 342 EREIEEERKRRDKLTEEYAELKEELEDLRAELEE----VDKEFAETRDELKDYREKLEKL 397

Query: 563 TSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVL 622
              IN L+ E   L+E+   LS+ +  L   I+  + K +++  +++        EI+  
Sbjct: 398 KREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKAL----EIKKQ 453

Query: 623 KSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQR 682
           + +     A L+   ++    +EE +  +++     RE  A  E  A   E   +  +  
Sbjct: 454 EWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQREL-AEAEAQARASEERVRGGRAV 512

Query: 683 EDVLRE 688
           E+VL+ 
Sbjct: 513 EEVLKA 518

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 31/173 (17%), Positives = 63/173 (36%), Gaps = 34/173 (19%)

Query: 565 RINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCS------- 617
            I  L  E   L  +   + K +   K E+    +  + +  + + +E+QV         
Sbjct: 11  AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQE 70

Query: 618 -------------------EIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAV 658
                              E+  L      A+ R+ +  ++     EE+E+   K    +
Sbjct: 71  IRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEK-LEKEIEDL 129

Query: 659 REAKAALEKA-----AIVQERTSKEMQQREDVL--REEFSSTLAEKVLSYLSR 704
           +E    LEK      A ++E  ++  ++ +++   REE    L  ++LS   R
Sbjct: 130 KERLERLEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKLDPELLSEYER 182

Length = 239

>gnl|CDD|204055 pfam08764, Coagulase, Staphylococcus aureus coagulase

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 24/102 (23%), Positives = 47/102 (46%), Gaps = 2/102 (1%)

Query: 518 LKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLR 577
           L  R + ++  LL+K+  + E+YK  Y K  ++  N K K+   +   + +L  +  +  
Sbjct: 60  LMTRILGEDQYLLEKKKAEYEKYKKWYKKYKEENPNSKLKMKTFHKYNLYDLTMKEYN-- 117

Query: 578 EKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEI 619
           E S SL   V+  K E+   + K   +    +  E++   E+
Sbjct: 118 EISKSLKDAVEDFKKEVKKIQSKNSDLKPYSEEEEEKATDEV 159

Staphylococcus aureus secretes a cofactor called coagulase. Coagulase is an extracellular protein that forms a complex with human prothrombin, and activates it without the usual proteolytic cleavages. The resulting complex directly initiates blood clotting. Length = 282

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 36/202 (17%), Positives = 87/202 (43%), Gaps = 25/202 (12%)

Query: 499 LDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLED-----SERYKSEYLK------R 547
           L  ++  ++++  E S L  +   IE  ++ L K+++D       R K +  +       
Sbjct: 246 LASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIAS 305

Query: 548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTK 607
            + +I +K++  +D   R+  L+ E   L  +       ++ L+ EI + +++ D++  +
Sbjct: 306 LERSIAEKERELEDAEERLAKLEAEIDKLLAE-------IEELEREIEEERKRRDKLTEE 358

Query: 608 QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEK 667
              +++    E+E L++     +   A  R++    +E++E+ KR+     RE     E+
Sbjct: 359 YAELKE----ELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEE 414

Query: 668 AAIVQERTSKEMQQREDVLREE 689
               Q  + +       +   E
Sbjct: 415 L---QRLSEELADLNAAIAGIE 433

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 36/207 (17%), Positives = 81/207 (39%), Gaps = 28/207 (13%)

Query: 501 LVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLAD 560
           L K  I ++  +  +L +K   I+  +K   K +E+  +   E + R  +  ++  + A 
Sbjct: 171 LNKDKIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAK 230

Query: 561 DYTSRINNLQGE----NISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAM--EDQ 614
              + I  L  E     + + + S++L+K    L    +  K K +Q   K   M  +  
Sbjct: 231 TIKAEIEELTDELLNLVMDIEDPSAALNK----LNTAAAKIKSKIEQ-FQKVIKMYEKGG 285

Query: 615 VC----SEIEVLKSRSTAAEARLAAAR---EQALSAQEEVEEWKRKYGVAVREAKA---- 663
           VC     +I     R T  + +L   +   E+  +A +E+EE   ++    ++       
Sbjct: 286 VCPTCTQQISEGPDRITKIKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNK 345

Query: 664 -ALEKAAIVQERTS-----KEMQQRED 684
            +  K +++            +++ + 
Sbjct: 346 ISTNKQSLITLVDKAKKVKAAIEELQA 372

Length = 562

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	716
PF02263	260	GBP: Guanylate-binding protein, N-terminal domain;	100.0
KOG2037	552	consensus Guanylate-binding protein [General funct	100.0
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	100.0
PF02841	297	GBP_C: Guanylate-binding protein, C-terminal domai	100.0
KOG2037	552	consensus Guanylate-binding protein [General funct	99.97
PF05879	742	RHD3: Root hair defective 3 GTP-binding protein (R	99.96
KOG2203	772	consensus GTP-binding protein [General function pr	99.95
PF00038	312	Filament: Intermediate filament protein; InterPro:	99.48
KOG4181	491	consensus Uncharacterized conserved protein [Funct	98.76
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	98.55
COG1159	298	Era GTPase [General function prediction only]	98.28
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.23
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.11
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.1
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.08
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.04
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	97.99
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.94
PF02841	297	GBP_C: Guanylate-binding protein, C-terminal domai	97.93
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.92
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	97.9
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.82
PRK11637	428	AmiB activator; Provisional	97.82
PRK00089	292	era GTPase Era; Reviewed	97.8
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	97.77
PHA02562	562	46 endonuclease subunit; Provisional	97.76
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.76
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.68
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	97.67
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.67
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.66
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.66
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.62
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.62
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.61
PRK04778	569	septation ring formation regulator EzrA; Provision	97.58
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.58
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.57
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.57
PRK04863	1486	mukB cell division protein MukB; Provisional	97.54
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.51
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	97.5
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.5
PHA02562	562	46 endonuclease subunit; Provisional	97.5
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.5
KOG0963	629	consensus Transcription factor/CCAAT displacement	97.5
PRK04778	569	septation ring formation regulator EzrA; Provision	97.48
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.47
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.44
PRK02224	880	chromosome segregation protein; Provisional	97.44
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.42
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.41
PF10220	895	DUF2146: Uncharacterized conserved protein (DUF214	97.4
PRK11637	428	AmiB activator; Provisional	97.4
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.38
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.36
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.33
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.33
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.32
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.31
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	97.3
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	97.29
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	97.27
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	97.24
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.22
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.21
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	97.21
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.21
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	97.2
PRK02224	880	chromosome segregation protein; Provisional	97.2
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.19
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	97.19
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.17
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	97.17
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	97.16
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.16
PRK03918	880	chromosome segregation protein; Provisional	97.15
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.15
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.13
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	97.09
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	97.08
PRK15494	339	era GTPase Era; Provisional	97.07
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.05
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.04
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.04
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	97.04
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.03
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.01
PRK12298	390	obgE GTPase CgtA; Reviewed	97.01
PRK09039	343	hypothetical protein; Validated	97.01
PRK09039	343	hypothetical protein; Validated	97.0
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	96.98
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.96
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	96.96
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.96
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	96.95
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	96.95
KOG0996	1293	consensus Structural maintenance of chromosome pro	96.95
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.93
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.9
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	96.89
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	96.89
PRK12289	352	GTPase RsgA; Reviewed	96.89
COG1161	322	Predicted GTPases [General function prediction onl	96.89
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.88
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	96.86
PRK11058	426	GTPase HflX; Provisional	96.85
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	96.85
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	96.85
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	96.84
PRK04863	1486	mukB cell division protein MukB; Provisional	96.84
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	96.83
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.81
PRK09563	287	rbgA GTPase YlqF; Reviewed	96.78
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.78
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.77
COG1084	346	Predicted GTPase [General function prediction only	96.76
PRK12288	347	GTPase RsgA; Reviewed	96.76
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.76
COG1160	444	Predicted GTPases [General function prediction onl	96.76
cd00881	189	GTP_translation_factor GTP translation factor fami	96.74
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	96.71
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.71
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.71
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.69
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.69
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	96.69
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	96.69
PRK03918	880	chromosome segregation protein; Provisional	96.68
cd01881	176	Obg_like The Obg-like subfamily consists of five w	96.68
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	96.67
cd01896	233	DRG The developmentally regulated GTP-binding prot	96.67
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.66
COG3596	296	Predicted GTPase [General function prediction only	96.65
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.65
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.62
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	96.62
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.62
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.59
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	96.57
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	96.57
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	96.57
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.57
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	96.55
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.54
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	96.54
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.52
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.52
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.51
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	96.49
PRK04213	201	GTP-binding protein; Provisional	96.49
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.48
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.47
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	96.47
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	96.45
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.44
PRK00098	298	GTPase RsgA; Reviewed	96.44
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	96.44
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.44
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	96.42
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.41
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	96.41
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.41
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.4
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.4
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.39
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.38
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	96.37
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	96.37
PRK00093	435	GTP-binding protein Der; Reviewed	96.36
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	96.36
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	96.35
COG5019	373	CDC3 Septin family protein [Cell division and chro	96.34
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	96.33
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	96.33
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.32
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.31
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.3
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	96.29
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	96.29
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.27
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.27
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.26
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.25
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.25
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	96.24
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.24
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	96.24
PLN03118	211	Rab family protein; Provisional	96.22
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	96.22
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	96.21
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	96.2
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	96.2
KOG4673	961	consensus Transcription factor TMF, TATA element m	96.2
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	96.19
smart00178	184	SAR Sar1p-like members of the Ras-family of small	96.18
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.17
COG0486	454	ThdF Predicted GTPase [General function prediction	96.17
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.17
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	96.16
PRK00093	435	GTP-binding protein Der; Reviewed	96.16
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.16
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	96.15
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	96.15
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.15
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	96.14
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.14
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	96.14
PRK03003	472	GTP-binding protein Der; Reviewed	96.13
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	96.13
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	96.13
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	96.12
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	96.1
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	96.1
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	96.09
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	96.08
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	96.08
PRK12299	335	obgE GTPase CgtA; Reviewed	96.07
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.07
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	96.07
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	96.05
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	96.02
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	96.02
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	96.02
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.02
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.02
PRK03003	472	GTP-binding protein Der; Reviewed	96.01
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	96.0
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.99
PTZ00258	390	GTP-binding protein; Provisional	95.99
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	95.98
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.97
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	95.96
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	95.96
PRK01156	895	chromosome segregation protein; Provisional	95.94
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.94
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.93
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	95.93
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	95.92
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.92
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.92
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	95.9
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	95.89
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	95.89
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	95.87
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	95.8
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.8
PLN03110	216	Rab GTPase; Provisional	95.8
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	95.8
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	95.79
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.75
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.74
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	95.73
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.73
CHL00189	742	infB translation initiation factor 2; Provisional	95.73
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	95.73
PRK12296	500	obgE GTPase CgtA; Reviewed	95.72
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.71
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.7
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.69
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	95.69
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.68
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.68
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	95.68
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.67
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	95.64
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	95.62
KOG0996	1293	consensus Structural maintenance of chromosome pro	95.61
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.6
PRK12297	424	obgE GTPase CgtA; Reviewed	95.6
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	95.59
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	95.58
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	95.58
PRK13796	365	GTPase YqeH; Provisional	95.58
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	95.52
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	95.52
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	95.52
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	95.51
COG4942	420	Membrane-bound metallopeptidase [Cell division and	95.5
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	95.48
PRK09601	364	GTP-binding protein YchF; Reviewed	95.44
CHL00071	409	tufA elongation factor Tu	95.42
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	95.41
KOG1003	205	consensus Actin filament-coating protein tropomyos	95.4
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	95.36
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	95.35
COG1162	301	Predicted GTPases [General function prediction onl	95.35
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.34
PLN03108	210	Rab family protein; Provisional	95.31
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.3
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	95.29
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.29
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.28
PRK09602	396	translation-associated GTPase; Reviewed	95.25
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	95.23
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	95.21
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	95.19
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	95.18
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.18
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	95.17
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.17
PRK04004	586	translation initiation factor IF-2; Validated	95.14
KOG1003	205	consensus Actin filament-coating protein tropomyos	95.12
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	95.12
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.11
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	95.07
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	95.07
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	95.06
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.06
PTZ00369	189	Ras-like protein; Provisional	95.05
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.04
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	95.03
PRK10698	222	phage shock protein PspA; Provisional	95.03
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	95.01
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	95.01
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	94.96
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	94.96
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	94.95
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	94.89
COG1160	444	Predicted GTPases [General function prediction onl	94.89
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	94.88
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	94.87
PRK10218	607	GTP-binding protein; Provisional	94.86
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	94.85
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	94.85
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	94.8
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	94.78
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	94.77
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	94.76
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	94.76
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	94.76
PRK12736	394	elongation factor Tu; Reviewed	94.75
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.74
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	94.74
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	94.72
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	94.72
PRK12735	396	elongation factor Tu; Reviewed	94.71
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	94.71
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	94.7
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	94.68
cd04105	203	SR_beta Signal recognition particle receptor, beta	94.68
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	94.68
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	94.65
KOG0410	410	consensus Predicted GTP binding protein [General f	94.64
PTZ00133	182	ADP-ribosylation factor; Provisional	94.57
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	94.56
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	94.54
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.53
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	94.5
PRK05433	600	GTP-binding protein LepA; Provisional	94.45
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	94.42
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	94.4
COG4136	213	ABC-type uncharacterized transport system, ATPase	94.37
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	94.37
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	94.29
COG2262	411	HflX GTPases [General function prediction only]	94.29
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	94.23
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	94.23
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.23
PLN03126	478	Elongation factor Tu; Provisional	94.22
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	94.21
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	94.2
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	94.19
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	94.18
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	94.17
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	94.17
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	94.16
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	94.15
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	94.14
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	94.13
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	94.11
PLN02318	656	phosphoribulokinase/uridine kinase	94.1
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	94.09
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	94.06
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	94.05
COG1100	219	GTPase SAR1 and related small G proteins [General	94.03
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.03
PRK12317	425	elongation factor 1-alpha; Reviewed	94.02
PRK10361	475	DNA recombination protein RmuC; Provisional	94.02
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	93.96
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	93.85
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	93.81
PRK01156	895	chromosome segregation protein; Provisional	93.77
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	93.76
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.73
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	93.7
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	93.69
PRK00300	205	gmk guanylate kinase; Provisional	93.62
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	93.61
KOG0963	629	consensus Transcription factor/CCAAT displacement	93.55
PRK05306	787	infB translation initiation factor IF-2; Validated	93.54
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	93.51
PRK00049	396	elongation factor Tu; Reviewed	93.5
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	93.5
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	93.5
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	93.47
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	93.45
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	93.44
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	93.43
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	93.42
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	93.38
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	93.37
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	93.34
COG1163	365	DRG Predicted GTPase [General function prediction	93.33
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	93.32
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	93.31
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	93.3
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	93.27
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	93.25
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	93.23
TIGR00485	394	EF-Tu translation elongation factor TU. This align	93.23
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	93.23
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	93.19
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	93.19
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	93.16
COG0218	200	Predicted GTPase [General function prediction only	93.14
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	93.13
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	93.12
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	93.1
TIGR00503	527	prfC peptide chain release factor 3. This translat	93.07
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.06
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	93.04
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	93.03
PLN03127	447	Elongation factor Tu; Provisional	93.02
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	93.02
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	92.98
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	92.98
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	92.91
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	92.91
cd07651	236	F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology	92.89
COG3172	187	NadR Predicted ATPase/kinase involved in NAD metab	92.89
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	92.84
PRK13351	687	elongation factor G; Reviewed	92.84
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	92.83
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	92.83
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	92.82
PRK01889	356	GTPase RsgA; Reviewed	92.82
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	92.82
COG5185	622	HEC1 Protein involved in chromosome segregation, i	92.82
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	92.82
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	92.81
cd03269	210	ABC_putative_ATPase This subfamily is involved in	92.8
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	92.79
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	92.78
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	92.76
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	92.68
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	92.68
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	92.67
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	92.65
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	92.65
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	92.63
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	92.62
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	92.62
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	92.61
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	92.6
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	92.59
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	92.58
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	92.58
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	92.56
PF14992	280	TMCO5: TMCO5 family	92.56
PLN00223	181	ADP-ribosylation factor; Provisional	92.54
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	92.54
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	92.54
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	92.54
cd03216	163	ABC_Carb_Monos_I This family represents the domain	92.53
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	92.52
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	92.52
COG4372	499	Uncharacterized protein conserved in bacteria with	92.49
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	92.47
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	92.46
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	92.46
KOG0249	916	consensus LAR-interacting protein and related prot	92.45
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	92.45
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	92.44
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	92.44
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	92.42
COG1341	398	Predicted GTPase or GTP-binding protein [General f	92.4
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	92.4
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	92.39
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	92.39
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	92.38
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	92.38
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	92.37
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	92.37
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	92.37
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	92.33
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	92.32
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	92.3
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	92.3
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	92.3
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	92.28
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	92.28
PF13555	62	AAA_29: P-loop containing region of AAA domain	92.27
PRK13537	306	nodulation ABC transporter NodI; Provisional	92.27
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	92.25
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	92.21
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	92.2
cd07648	261	F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Am	92.18
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	92.18
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	92.17

>PF02263 GBP: Guanylate-binding protein, N-terminal domain; InterPro: IPR015894 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma

Probab=100.00  E-value=7.5e-67  Score=546.81  Aligned_cols=259  Identities=47%  Similarity=0.868  Sum_probs=228.5

Q ss_pred             CCceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeE
Q 005055           51 KGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNL  130 (716)
Q Consensus        51 ~~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~v  130 (716)
                      +++|.||++|+++|..+++||+||||+|+||||||||||+|+|...||+||++++|||+|||||+.|.    +.+++++|
T Consensus         1 ~~~~~~~~~al~~l~~~~~~v~vvsi~G~~rtGKSfLln~l~~~~~gF~~~~~~~~~T~Giw~w~~~~----~~~~~~~v   76 (260)
T PF02263_consen    1 DNKLELNEEALEILQQIDQPVAVVSIVGPYRTGKSFLLNQLLGPQSGFSWGPTVEPCTKGIWMWSEPL----PDGEKVAV   76 (260)
T ss_dssp             TTEEEE-HHHHHHHCTTTSBEEEEEEEEETTSSHHHHHHHHCCBSSSSESSSCSSST-SCEEEECCE-----TTSTCEEE
T ss_pred             CCeEEECHHHHHHHhcCCCCEEEEEeecCCccchHHHHHHHhcccccccccCCCCCCCcceeeeeccc----ccccceeE
Confidence            47899999999999999999999999999999999999999999999999999999999999999994    45778999


Q ss_pred             EEEeCCCCcccc-cCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHHHHHHHHHHHhcCCCCCCCcccccCCeE
Q 005055          131 LLLDSEGIDAYD-QTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIF  209 (716)
Q Consensus       131 vlLDTEGl~~~~-~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f  209 (716)
                      |||||||++++. .+.++|++||+|++||||++|||++|.|++++|++|+++++++++|+++... .....++..+||+|
T Consensus        77 ~llDteG~~~~~~~~~~~d~~if~Ls~LLSS~~IyN~~~~i~~~~l~~L~~~~~l~~~i~~~~~~-~~~~~~~~~~fp~l  155 (260)
T PF02263_consen   77 VLLDTEGLGDVEQSDEKYDAKIFALSMLLSSVLIYNSMGNIDEDDLDQLELFTELAKHIRVKYGD-SADSEDLGKPFPSL  155 (260)
T ss_dssp             EEEEEECBTTTTCCCCHHCHHHHHHHHHH-SEEEEEECSSSSHHHHHCCHHHHHHHHHHHHTHHH-HHHHHCTTTTCEEE
T ss_pred             EEecchhccccccCcccccHHHHHHHHHHhCceeeCCCCccchhHHHHHHHHHHHHHHHHHhccc-ccchhhhcccchHH
Confidence            999999998854 4567899999999999999999999999999999999999999999876321 11233466789999


Q ss_pred             EEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHHHHhhCCCCeEEeecCCCCChhhhhcccCCCCCC
Q 005055          210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDR  289 (716)
Q Consensus       210 ~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~  289 (716)
                      +||||||++++..+|+.+|+++||+++|+...|.++.+..+|.+|++|++|||+++||+||||+.++..++++++++.++
T Consensus       156 ~wlvRDf~~~~~~~~~~~t~~eyLe~~L~~~~~~~~~~~~~N~iR~~I~~~F~~~~cf~Lp~P~~~~~~l~~l~~l~~~~  235 (260)
T PF02263_consen  156 VWLVRDFSLELEDDGGKITPQEYLEQALKPESGQDEEIQERNKIRECIRSCFPSRDCFTLPHPGSDVDKLQNLDGLSLDD  235 (260)
T ss_dssp             EEEEECE-SCTCCTTECHHHHHHHHHHCCSSTSSSCCCCCHHHHHHHHHHHECCEEEEEEE-SSCCCCC-TCGCCCBGGG
T ss_pred             HHHHhhccchhhhccCCCCHHHHHHHHHhcccchhHHHHHhhHHHHHHHHHCCCCeEEEecCCCchhhhccCcccCChhh
Confidence            99999999998888999999999999999888888888899999999999999999999999999999889999999999


Q ss_pred             CChHHHHHHHHHHHHHhccCCcccc
Q 005055          290 LRPEFRAGLDALTKFVFERTRPKQV  314 (716)
Q Consensus       290 L~~eF~~~l~~l~~~i~~~~~pK~~  314 (716)
                      |+|+|+++++.||++|++...+|++
T Consensus       236 L~~eF~~~l~~l~~~i~~~~~~k~~  260 (260)
T PF02263_consen  236 LDPEFVEQLDELVKYIFSSAKVKTL  260 (260)
T ss_dssp             S-HHHHHHHHHHHHHHHCCT---BE
T ss_pred             CCHHHHHHHHHHHHHHhccCCcccC
Confidence            9999999999999999998888864

GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function, and an alpha-helical finger-like C-terminal domain (IPR003191 from INTERPRO). Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3QOF_A 3Q5E_C 3QNU_A 3Q5D_A 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.

>KOG2037 consensus Guanylate-binding protein [General function prediction only]

Probab=100.00  E-value=1.8e-51  Score=458.87  Aligned_cols=476  Identities=23%  Similarity=0.287  Sum_probs=421.1

Q ss_pred             CeeEEEeCCCCceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccc
Q 005055           42 PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT  121 (716)
Q Consensus        42 pi~LI~~d~~~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~  121 (716)
                      |.|++ .+.+|+|.+|| |+.+|+.+++||+||+|+|.||+||||+||.++|++.||++++++.|||+||||||.|++  
T Consensus         5 p~~~~-~~~~~~l~~~p-a~~~l~~~~~p~~Vv~i~g~~~~gksfiln~la~~~~gf~~~s~~~~~~~~~w~w~~p~~--   80 (552)
T KOG2037|consen    5 PMLLY-ENENGQLKVNP-ALEILQAIKQPVAVVAIVGLYRTGKSFILNQLAGKRIGFSVASTDKPVTKGIWMWCVPHG--   80 (552)
T ss_pred             chhhh-hccccccccCc-chhHHhhccCCceEEEEEEEEcCCCceehhhhHhhhcCCCcccccccceeeEEEEEeecC--
Confidence            45454 46679999999 999999999999999999999999999999999999999999999999999999999986  


Q ss_pred             cCCCCceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHHHHHHHHHHHhcC---CC--
Q 005055          122 ALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASG---GK--  196 (716)
Q Consensus       122 ~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~el~~~i~~k~~~---~~--  196 (716)
                        ++..+++||+||||+   ..+..++.|||+++.|+||+++||+.|+|+..+|.++++|+++++.+++.+..   ..  
T Consensus        81 --k~~~~~l~Lld~eg~---~~~~~~~~w~~~~~~l~~~~~~~~s~~~~~~~~~~~~~~~~~~~e~~k~~~~l~~~~~a~  155 (552)
T KOG2037|consen   81 --KSFLLNLVLLDTEGL---KGDNENDDWIFALAPLLSSTWVYGSEGTINGIAMWQLPFVTELTEGIKVASSLMDTQGAF  155 (552)
T ss_pred             --Cccchhhhhhccccc---cCCccchhhhhccchhhcceeeccCCcccchheecccceeeecCCcceeccccccccccc
Confidence              466799999999998   45677899999999999999999999999999999999999999998877652   11  


Q ss_pred             CCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHHHHhhCCCCeEEeecCCCCCh
Q 005055          197 TTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNE  276 (716)
Q Consensus       197 ~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F~~~~cf~l~~P~~~~  276 (716)
                      ++..++..+||.|.|..|||++++..+++++++++|++..|....|           |                      
T Consensus       156 ~~~~~~~~~~p~fa~tt~~~slqi~~~~q~i~ed~l~~l~l~~~~g-----------~----------------------  202 (552)
T KOG2037|consen  156 DDQSTFRSCFPDFALTTMDSSLQIYNDSQNIQEDDLQHLSLFTEYG-----------R----------------------  202 (552)
T ss_pred             cccccHHHhcchhhceeeeeehhhhcccCcCCHHHHHHHHHHHHHH-----------H----------------------
Confidence            4556778899999999999999999999999999999988875433           1                      


Q ss_pred             hhhhcccCCCCCCCChHHHHHHHHHHHHHhccCCcccc-CCcccchhhHHHHHHHHHHHHhcC-CCCCccchHHHHHHHH
Q 005055          277 NELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAINNG-AVPTISSSWQSVEEAE  354 (716)
Q Consensus       277 ~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~~~~pK~~-~g~~ltG~~l~~l~~~yv~ain~g-~vP~i~s~~~~~~e~e  354 (716)
                      ..+.++...|.++|.+.|+.+...+|.+++.+...|.+ +|..++|+.+..|...|+.+++.+ .+||..++..++++++
T Consensus       203 ~~l~~~~~kp~q~L~~~~~~~s~~~c~~~~~~~~~~~l~~~l~v~~~~~~el~~~r~~~~~~~~d~~c~~~~~~~l~~~~  282 (552)
T KOG2037|consen  203 LALAHLFKKPFQDLKFLVRDQSFPFCSYIGEHGGTKNLDNRLKVNGPQLEELVQLRVHARSCFEDLPCFLNPHPGLAVAE  282 (552)
T ss_pred             HHHHHhccCcHHHHHHHHHHhhhhhhHHHHHhccccccccceeecccchHHHHHHHHHHHhhccCcchhhcCchhhhccc
Confidence            23445556788899999999999999999999999999 778999999999999999999999 9999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcccC-C--CC-ChHHHHHHHHHHHHHHHHHhhhccCCChhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          355 CRRAYDSATETYMSTFDRS-K--PP-EEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVY  430 (716)
Q Consensus       355 ~~~a~~~A~~~Y~~~m~~~-~--p~-~e~eL~~~H~~~~~~Al~~F~~~s~g~~~~~~~~~~~L~~~l~~~~e~~~~~n~  430 (716)
                      |..+++.+.++|...|.+. .  |. ...+++..|..+..++...|....|  ++..+-|++++...+..... +++.|.
T Consensus       283 n~~~~~~~~~~~~~~~~ql~~~~p~~~~q~~l~~~~~~~~~~t~~~~~e~f--k~y~~i~q~~~g~~lp~pks-~l~~~a  359 (552)
T KOG2037|consen  283 NPAFDGKLEDHYNQFMGQLKVELPNLLLQELLDEKEISGREVTCREMKEYF--KAYDKIFQKKLGETLPGPKS-MLKANA  359 (552)
T ss_pred             CchhhhhHHHHHHHHHHHHhhhhhHHhhhhhccccccCccchhHHHHHHHH--HHHHHHhhHhhhhhCcCccc-HHHHHH
Confidence            9999999999999999886 3  32 3378899999999999999999888  47778899888888877777 889999


Q ss_pred             HHHHHHHHHHHHH----HHHHHHhh-ccCCCCchHHHHHHHHHHHHHHhccc-CCCchhHHHHHHHh--hhccchHHHHH
Q 005055          431 MEADIRCSSAIQS----MERKLRAA-CHSSDASIDNVVKVLDGLISEYETSC-HGPGKWQKLATFLQ--QSSEGPILDLV  502 (716)
Q Consensus       431 ~~s~~~C~~~l~~----le~~l~~~-~~~~~~~~~~~~~~l~~ll~eY~~~~-~GP~K~~~L~~FLq--~~~~~~il~~~  502 (716)
                      .++...|.+..+.    +++.+..+ .+..++++..+.+.+..+...|...+ +|-+...+...|++  +.+...+++.+
T Consensus       360 ea~~l~~va~ak~~~~~~~Eev~~G~~~~~~s~L~~~~d~~k~~a~~~~~e~rK~ig~~e~~~~~lq~LE~v~~~l~~~~  439 (552)
T KOG2037|consen  360 EASSLAAVAAAKDIYGPLMEEVKGGDIYLSPSGLNLKHDKVKELALKYFTEPRKGIGAEEVCQRYLQSLESVEEELLQTD  439 (552)
T ss_pred             HHhhHHHHHHHHHHHhhhhhhhhcCceeecccHHHHHHHHHHHHHHHHHhhhhhhhcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999988875    66667777 78889999999999999998888876 66777788888887  67778999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 005055          503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYT  563 (716)
Q Consensus       503 k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~  563 (716)
                      +.+++. .+.....|.+.++......++....-.....|....+.+++.+.++..+++.-+
T Consensus       440 ~~~~~s-~~~~~~~r~~A~a~~~~~~~~~~~~~~~~~~me~~a~~~~~~~~q~~~~~~~~a  499 (552)
T KOG2037|consen  440 QALTES-KKLFLAARTPAEAAAKEAILLILSGLEGFIGMEIAARLIEETMKQLVEELETWA  499 (552)
T ss_pred             HHHhcc-chhHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999 999999999999999999999999999999999999999999999866665443

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=100.00  E-value=7.1e-46  Score=380.41  Aligned_cols=219  Identities=38%  Similarity=0.585  Sum_probs=191.5

Q ss_pred             ccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCC
Q 005055           66 LVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTG  145 (716)
Q Consensus        66 ~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~  145 (716)
                      .++.||+||||+|++|+|||||||+|+|..+||+||++..+||+|||||+.|+..    +.++.|+||||||+++.+.+.
T Consensus         2 ~~~~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~----~~~~~v~~lDteG~~~~~~~~   77 (224)
T cd01851           2 KAGFPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKL----GKEHAVLLLDTEGTDGRERGE   77 (224)
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccC----CCcceEEEEecCCcCccccCc
Confidence            3678999999999999999999999999988999999999999999999999864    455789999999999998888


Q ss_pred             -cchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHHHHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccC
Q 005055          146 -TYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDN  224 (716)
Q Consensus       146 -~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g  224 (716)
                       .+|++||+|++||||++|||+.+.+++.+++.|+.+++++...     ++.........++|.|+||||||++.....+
T Consensus        78 ~~~~~~~~~l~~llss~~i~n~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~~~~~~p~ll~vvRD~~~~~~~~~  152 (224)
T cd01851          78 FEDDARLFALATLLSSVLIYNSWETILGDDLAALMGLLKTTLEV-----LGLAGLTEFEKPKPLLLFVVRDFSLDTPLEN  152 (224)
T ss_pred             hhhhhHHHHHHHHHhCEEEEeccCcccHHHHHHHHHHHHHHHHh-----hhhhhhhhcccCCCceEEEEecCcCCccccc
Confidence             8999999999999999999999999999999999999886211     1111233556789999999999999877655


Q ss_pred             ccCChHHHHHHhhccccCCChhhHhhhHHHHHHHhhC--CCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHH
Q 005055          225 RKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALF--PDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALT  302 (716)
Q Consensus       225 ~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F--~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~  302 (716)
                      ..++            .+.....+..|.+|.+|+.+|  ++++||++++|+.+...+++  +++..+++|+|.++++.|+
T Consensus       153 ~~~~------------~~~~~~~~~~~~ir~~l~~~f~~~~~~cf~l~~p~~~~~~~~~--~~~~~~l~~eF~~~l~~L~  218 (224)
T cd01851         153 LDIT------------EGRETLIEDLNKIWSSIRKPFENPPIDCFFLPRPGLLHHLLQN--EGRLKLLPPEFLEALKELR  218 (224)
T ss_pred             cccc------------cccchhHHHHHHHHHHHHhhccCCcchheeccccccchhhccc--ccchhhCCHHHHHHHHHHH
Confidence            4444            344556788999999999999  99999999999999888877  7899999999999999999


Q ss_pred             HHHhc
Q 005055          303 KFVFE  307 (716)
Q Consensus       303 ~~i~~  307 (716)
                      +++++
T Consensus       219 ~~~~~  223 (224)
T cd01851         219 DRFFS  223 (224)
T ss_pred             HHhcC
Confidence            99875

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

>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma

Probab=100.00  E-value=6e-38  Score=334.68  Aligned_cols=247  Identities=31%  Similarity=0.470  Sum_probs=220.5

Q ss_pred             CCcccchhhHHHHHHHHHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccC-C-CCC-hHHHHHHHHHHHHH
Q 005055          315 GATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRS-K-PPE-EVALGEAHEAAVQK  391 (716)
Q Consensus       315 ~g~~ltG~~l~~l~~~yv~ain~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~-~-p~~-e~eL~~~H~~~~~~  391 (716)
                      ||.+|||++|++|+++||+|||+|+||||+|+|.+|++++|.+|+++|+++|...|++. . |.+ .++|.+.|..|.++
T Consensus         1 gG~~vtG~~L~~L~~~Yv~aIn~G~vP~iesa~~~~~e~e~~~A~~~A~~~Y~~~m~~~~~~P~~~~~eL~~~H~~~~~~   80 (297)
T PF02841_consen    1 GGITVTGPMLAELVKSYVDAINSGSVPCIESAWQAVAEAENRAAVEKAVEHYEEQMEQRVKLPTETLEELLELHEQCEKE   80 (297)
T ss_dssp             TSEB-BHHHHHHHHHHHHHHHHTTS--BHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--SS-SSHHHHHHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999987 3 444 58999999999999


Q ss_pred             HHHHhhhccCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhhccCCCCchHHHHHHHH
Q 005055          392 ALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQS----MERKLRAACHSSDASIDNVVKVLD  467 (716)
Q Consensus       392 Al~~F~~~s~g~~~~~~~~~~~L~~~l~~~~e~~~~~n~~~s~~~C~~~l~~----le~~l~~~~~~~~~~~~~~~~~l~  467 (716)
                      |+.+|++++||  |..++|+++|...|.+.+++|++.|+.+|..+|+++|+.    |+++|+.+++++||+|+.|+++++
T Consensus        81 A~~~F~~~s~~--d~~~~~~~~L~~~i~~~~~~~~~~N~~~s~~~C~~~l~~l~~~le~~l~~~~~~~~gg~~~~~~~~~  158 (297)
T PF02841_consen   81 ALEVFMKRSFG--DEDQKYQKKLMEQIEKKFEEFCKQNEEASEKKCQALLQELFQPLEEKLKQGCYSKPGGYQLFLKELD  158 (297)
T ss_dssp             HHHHHHHH------GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTTSSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhcC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHH
Confidence            99999999998  477899999999999999999999999999999999987    899999999999999999999999


Q ss_pred             HHHHHHhccc-CCCchhHHHHHHHh--hhccchHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHH
Q 005055          468 GLISEYETSC-HGPGKWQKLATFLQ--QSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEY  544 (716)
Q Consensus       468 ~ll~eY~~~~-~GP~K~~~L~~FLq--~~~~~~il~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~  544 (716)
                      .++.+|+..| +||....+|..||+  ..+++.|+++++++++. ++++...+.+.++++.+...+.+.++..++.++..
T Consensus       159 ~~~~~Y~~~p~Kg~ka~evL~~fl~~~~~~~~~ilq~d~~L~~~-ek~~~~~~~k~e~~e~e~~~l~e~~~~~~~~le~~  237 (297)
T PF02841_consen  159 ELEKEYEQEPGKGVKAEEVLQEFLQSKESMENSILQADQQLTEK-EKEIEEEQAKAEAAEKEKEKLEEKQKEQEQMLEQQ  237 (297)
T ss_dssp             HHHHHHHHSS---TTHHHHHHHHHHHCHHHHHHHHHH-TTS-HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999985 78888888999987  45778999999999998 99999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHHHHHHHHHHH
Q 005055          545 LKRYDDAINDKKKLADDYTS  564 (716)
Q Consensus       545 ~k~lee~i~dlk~~~e~~~~  564 (716)
                      .++|++++.+|+++++....
T Consensus       238 ~~~~ee~~~~L~ekme~e~~  257 (297)
T PF02841_consen  238 ERSYEEHIKQLKEKMEEERE  257 (297)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            99999999999888776554

GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.

>KOG2037 consensus Guanylate-binding protein [General function prediction only]

Probab=99.97  E-value=3.9e-29  Score=279.89  Aligned_cols=380  Identities=18%  Similarity=0.186  Sum_probs=305.9

Q ss_pred             CCCCCeeEEEe--CCCCceeeCHHHHHHhh----ccCCCEEEEEeeCCCCCChhHHHHHhhCC-----------------
Q 005055           38 GPARPIRLVYC--DEKGKFRMDPEAVAALQ----LVKEPIGVVSVCGRARQGKSFILNQLLGR-----------------   94 (716)
Q Consensus        38 ~~~~pi~LI~~--d~~~~l~v~~eAl~~L~----~i~~pV~VVsV~G~~rtGKS~LlN~llg~-----------------   94 (716)
                      ..|.||+.|..  ..++.|.+|+.|.+.+-    ..+.||++++|+|.++.||||++|.+|-.                 
T Consensus        29 ~~p~~Vv~i~g~~~~gksfiln~la~~~~gf~~~s~~~~~~~~~w~w~~p~~k~~~~~l~Lld~eg~~~~~~~~~w~~~~  108 (552)
T KOG2037|consen   29 KQPVAVVAIVGLYRTGKSFILNQLAGKRIGFSVASTDKPVTKGIWMWCVPHGKSFLLNLVLLDTEGLKGDNENDDWIFAL  108 (552)
T ss_pred             cCCceEEEEEEEEcCCCceehhhhHhhhcCCCcccccccceeeEEEEEeecCCccchhhhhhccccccCCccchhhhhcc
Confidence            56677777766  56678999999999863    24689999999999999999999998722                 


Q ss_pred             --CCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCch
Q 005055           95 --SSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE  172 (716)
Q Consensus        95 --~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e  172 (716)
                        ..||.|..+..+.|.|||||..|+....++|.++++.++||+|..+...+.......|++++++||+.|||....|++
T Consensus       109 ~~l~~~~~~~~s~~~~~~~~~~~~~~~~~~~e~~k~~~~l~~~~~a~~~~~~~~~~~p~fa~tt~~~slqi~~~~q~i~e  188 (552)
T KOG2037|consen  109 APLLSSTWVYGSEGTINGIAMWQLPFVTELTEGIKVASSLMDTQGAFDDQSTFRSCFPDFALTTMDSSLQIYNDSQNIQE  188 (552)
T ss_pred             chhhcceeeccCCcccchheecccceeeecCCcceeccccccccccccccccHHHhcchhhceeeeeehhhhcccCcCCH
Confidence              246777778889999999999998888899999999999999976555555667889999999999999999999999


Q ss_pred             HhhhhhHHHHHHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhH
Q 005055          173 SAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNE  252 (716)
Q Consensus       173 ~~l~~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~  252 (716)
                      +++++|+++++.+....-.         .+...|-.+.+++|||+.+....-..-+.+..|.+.|+   ..+++.++...
T Consensus       189 d~l~~l~l~~~~g~~~l~~---------~~~kp~q~L~~~~~~~s~~~c~~~~~~~~~~~l~~~l~---v~~~~~~el~~  256 (552)
T KOG2037|consen  189 DDLQHLSLFTEYGRLALAH---------LFKKPFQDLKFLVRDQSFPFCSYIGEHGGTKNLDNRLK---VNGPQLEELVQ  256 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHH---------hccCcHHHHHHHHHHhhhhhhHHHHHhcccccccccee---ecccchHHHHH
Confidence            9999999999998744211         11222336788999999876532111233455666654   34567888888


Q ss_pred             HHHHHHhhCCCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHh--ccCCccccCCcccchhhHHHHHHH
Q 005055          253 IRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRPKQVGATVLTGPVLIGITES  330 (716)
Q Consensus       253 iR~~i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~--~~~~pK~~~g~~ltG~~l~~l~~~  330 (716)
                      +|++++.+|-++.||.+|+|+.....++..++ ...++.+.|..++...+..+.  .....|.++|..+|+..+..+++.
T Consensus       257 ~r~~~~~~~~d~~c~~~~~~~l~~~~n~~~~~-~~~~~~~~~~~ql~~~~p~~~~q~~l~~~~~~~~~~t~~~~~e~fk~  335 (552)
T KOG2037|consen  257 LRVHARSCFEDLPCFLNPHPGLAVAENPAFDG-KLEDHYNQFMGQLKVELPNLLLQELLDEKEISGREVTCREMKEYFKA  335 (552)
T ss_pred             HHHHHHhhccCcchhhcCchhhhcccCchhhh-hHHHHHHHHHHHHhhhhhHHhhhhhccccccCccchhHHHHHHHHHH
Confidence            99999999999999999999986554443332 455678888888865554443  356788889999999999999999


Q ss_pred             HHHHHh---cCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccCC----CCChHHHHHHHHHHHHHHHHHhhhc-c-C
Q 005055          331 YLDAIN---NGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK----PPEEVALGEAHEAAVQKALAVYNAG-A-V  401 (716)
Q Consensus       331 yv~ain---~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~~----p~~e~eL~~~H~~~~~~Al~~F~~~-s-~  401 (716)
                      |...+.   .-.+|...+...+.+++.+.+++..|...|...|++.+    ...+..|...|...+..|+.+|... + +
T Consensus       336 y~~i~q~~~g~~lp~pks~l~~~aea~~l~~va~ak~~~~~~~Eev~~G~~~~~~s~L~~~~d~~k~~a~~~~~e~rK~i  415 (552)
T KOG2037|consen  336 YDKIFQKKLGETLPGPKSMLKANAEASSLAAVAAAKDIYGPLMEEVKGGDIYLSPSGLNLKHDKVKELALKYFTEPRKGI  415 (552)
T ss_pred             HHHHhhHhhhhhCcCcccHHHHHHHHhhHHHHHHHHHHHhhhhhhhhcCceeecccHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            999999   56899999999999999999999999999999998864    2467899999999999999999886 4 7


Q ss_pred             CChhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          402 GVGLARKKYEGLLQKFFRKAFEDHKKNVY  430 (716)
Q Consensus       402 g~~~~~~~~~~~L~~~l~~~~e~~~~~n~  430 (716)
                      |..++.+.|.+.|...+...+..++..++
T Consensus       416 g~~e~~~~~lq~LE~v~~~l~~~~~~~~~  444 (552)
T KOG2037|consen  416 GAEEVCQRYLQSLESVEEELLQTDQALTE  444 (552)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            77788888888888877777666666553

>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins

Probab=99.96  E-value=2e-26  Score=271.58  Aligned_cols=356  Identities=19%  Similarity=0.257  Sum_probs=251.1

Q ss_pred             eCCCCCChhHHHHHhhCCCCcccccc--CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccC----CcchhH
Q 005055           77 CGRARQGKSFILNQLLGRSSGFQVAS--THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQT----GTYSTQ  150 (716)
Q Consensus        77 ~G~~rtGKS~LlN~llg~~~gF~~g~--~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~----~~~d~~  150 (716)
                      +|+++||||||||.|||++  |.+++  +++.||+||||-..+...    ...-.+++||+||+|+.+++    .++.+.
T Consensus         1 ~g~qssgkstlln~lf~t~--f~~m~~~~r~qtt~gi~~~~~~~~~----~~~~~~~v~d~eg~d~~er~~~~~fe~~~a   74 (742)
T PF05879_consen    1 FGSQSSGKSTLLNHLFGTQ--FDVMDESGRQQTTKGIWMAKAKEVE----SSESNILVLDVEGTDGRERGEDQDFERKSA   74 (742)
T ss_pred             CCCCCCcHHHHHHHHHCCC--ccccccccccccchhhHHHhccccc----cCCCceEEEeCCCCCchhhccccchHHHHH
Confidence            5999999999999999999  99987  567899999998765421    11246889999999988753    345788


Q ss_pred             HHHHhhhccceEEEcc----CCCCchHhhhhhHHHHHHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccCcc
Q 005055          151 IFSLAVLLSSMFIYNQ----MGGIDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRK  226 (716)
Q Consensus       151 IFaLa~LLSS~~IyN~----~g~i~e~~l~~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~  226 (716)
                      +||||+  |.++|.|+    .|..+.+.+.-|..|.++.-.+..++.        -....+.++||||||+-....+.-.
T Consensus        75 lf~la~--s~~~iiN~w~~~iG~~~~an~~lLktvfevnl~lf~~~~--------~~~~k~~llfviRD~~~~tp~e~l~  144 (742)
T PF05879_consen   75 LFALAV--SDVLIINMWEHDIGRYQGANMGLLKTVFEVNLQLFGKSK--------SNDRKTLLLFVIRDHTGVTPLENLE  144 (742)
T ss_pred             HHHHHh--hhheeeehhhhhhhhhcccchHHHHHHHHHHHHHHhhcc--------cCCCCceEEEEEeeCCCCCcHHHHH
Confidence            999985  99999998    688888899999999988654433221        0124678999999998411101111


Q ss_pred             CChHHHHHHhhccccCCChhhHhhhHHHHHHHhhCCCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHh
Q 005055          227 ITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVF  306 (716)
Q Consensus       227 ~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~  306 (716)
                      -|-.+.|++++.....+..   -.   ...|..|| ++..++|||....               .+.|.+++..|++.+.
T Consensus       145 ~~l~~dl~~iW~~i~kP~~---~~---~~~~~d~F-d~~f~~LpH~~~~---------------~e~F~~~v~~Lr~rf~  202 (742)
T PF05879_consen  145 ETLREDLEKIWDSISKPEG---FE---NSSLSDFF-DLEFTALPHKILQ---------------PEKFNEDVAKLRQRFV  202 (742)
T ss_pred             HHHHHHHHHHHHhccCccc---cc---CCChhhee-eeeeeccCchhhh---------------HHHHHHHHHHHHHHHh
Confidence            1233444555544321110   01   13588899 8999999996553               4589999999999988


Q ss_pred             cc-------CCccccCCcccchhhHHHHHHHHHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccCC-----
Q 005055          307 ER-------TRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK-----  374 (716)
Q Consensus       307 ~~-------~~pK~~~g~~ltG~~l~~l~~~yv~ain~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~~-----  374 (716)
                      ..       .+|.  ..+.|++.+|..|++..|+.|.++.--.+++.-..||+..|.+++.+++..|...+....     
T Consensus       203 ~~~~~~~~~~~~~--y~~~iP~dG~~~y~~~iW~~I~~nkDLDLPtqq~mlA~fRCdEI~~e~l~~f~~~~~~~~~~~~~  280 (742)
T PF05879_consen  203 DSKNIEDGLFKPE--YHRRIPADGFSMYAENIWEQIKNNKDLDLPTQQEMLAQFRCDEIANEVLEEFDEDIKELIEKWSE  280 (742)
T ss_pred             ccCcCCCCCCchh--hcCCCChHHhHHHHHHHHHHHHhCccCCCCcHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhhhhh
Confidence            75       2222  334577778999999999999999877888888999999999999999999998754311     


Q ss_pred             ------CCChHHHHHHHHHHHHHHHHHhhhccCC-ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          375 ------PPEEVALGEAHEAAVQKALAVYNAGAVG-VGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERK  447 (716)
Q Consensus       375 ------p~~e~eL~~~H~~~~~~Al~~F~~~s~g-~~~~~~~~~~~L~~~l~~~~e~~~~~n~~~s~~~C~~~l~~le~~  447 (716)
                            ...-..|.........+|++.|+..+-. ...++.+.+.+|...|...+...-..   .-...+..++..+.+.
T Consensus       281 l~~~~~~~~~~~fg~~~~~l~~~~L~~YD~~AsrY~~~V~~~Kr~eL~~~i~~~l~~lf~~---qL~~L~~~~l~~Fk~~  357 (742)
T PF05879_consen  281 LEEAVQGGVVEDFGKKLKSLRDKALEEYDEEASRYHKSVYQEKRQELESKIDSELQPLFQK---QLKHLRKKLLESFKEA  357 (742)
T ss_pred             hhhhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence                  2334689999999999999999987532 24667777777777777665543221   1234566777777777


Q ss_pred             HHhhccCCCCchHHH-HHHHHHHHHHHhcc
Q 005055          448 LRAACHSSDASIDNV-VKVLDGLISEYETS  476 (716)
Q Consensus       448 l~~~~~~~~~~~~~~-~~~l~~ll~eY~~~  476 (716)
                      +..... .+.+|... ......++..|+..
T Consensus       358 l~~~lk-~~~~Fa~~v~~~~~~~~~~F~~~  386 (742)
T PF05879_consen  358 LSSALK-SGEDFAEAVRECKQSALEEFEES  386 (742)
T ss_pred             HHHHhh-cCCCHHHHHHHHHHHHHHHHHHH
Confidence            664332 23355433 33455556666654

It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides

>KOG2203 consensus GTP-binding protein [General function prediction only]

Probab=99.95  E-value=4.1e-25  Score=240.09  Aligned_cols=273  Identities=23%  Similarity=0.365  Sum_probs=204.2

Q ss_pred             CCCeeEEEeCCCCceeeCHHHHHHhhc-c-----CCCEEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccce
Q 005055           40 ARPIRLVYCDEKGKFRMDPEAVAALQL-V-----KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKG  110 (716)
Q Consensus        40 ~~pi~LI~~d~~~~l~v~~eAl~~L~~-i-----~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkG  110 (716)
                      ....|||  |+++.|  |..+++...+ +     .-.+.||||.|++.||||||||.|+|++  |....   +.+.+|||
T Consensus         4 r~stQlI--De~keF--n~s~l~~F~q~vgl~d~Gl~YhVVavmG~QSSGKSTLLN~LFgTn--F~~MDA~~gRqQTTKG   77 (772)
T KOG2203|consen    4 RCSTQLI--DEEKEF--NVSGLDYFQQCVGLRDCGLSYHVVAVMGSQSSGKSTLLNHLFGTN--FREMDAFKGRQQTTKG   77 (772)
T ss_pred             cccceee--cccccc--chhhHHHHHHHhcccccCcceeEEEEecCcccchHHHHHHHhccC--hHHHHhhhccccccch
Confidence            4457898  666777  7778888764 2     3489999999999999999999999998  77654   57789999


Q ss_pred             EEeeccccccccCCCCceeEEEEeCCCCcccccC----CcchhHHHHHhhhccceEEEcc----CCCCchHhhhhhHHHH
Q 005055          111 LWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQT----GTYSTQIFSLAVLLSSMFIYNQ----MGGIDESAIDRLSLVT  182 (716)
Q Consensus       111 IWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~----~~~d~~IFaLa~LLSS~~IyN~----~g~i~e~~l~~L~~v~  182 (716)
                      |||...       .|-+..+++||.||.|+.+++    .+..+.+||+|+  |-++|.|+    .|..+.+++-.|..|.
T Consensus        78 IWlar~-------~~i~p~i~vmDvEGTDGrERGEDqdFErksALFaiav--SevvivNMW~~qIG~~Q~aN~~LLKTVf  148 (772)
T KOG2203|consen   78 IWLARC-------AGIEPCILVMDVEGTDGRERGEDQDFERKSALFAIAV--SEVVIVNMWEHQIGLYQGANMALLKTVF  148 (772)
T ss_pred             hhHHhh-------cCCCCceEEEecccCCcccccccccHHHHhHHHHHhh--hheehhhHHHHHhhHhhccCcHHHHHHH
Confidence            999753       233446899999999887763    445789999996  99999997    5777788888899988


Q ss_pred             HHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhc--------cccCCChhhHhhhHHH
Q 005055          183 QMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALR--------PVQGSGRDIAAKNEIR  254 (716)
Q Consensus       183 el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~--------~~~g~~~~~~~~n~iR  254 (716)
                      ++.-  ++.+  .+.+       .-.++||+||++.        .||-+-|+.+|+        ..+.+   ..-.|   
T Consensus       149 eV~l--rLF~--~rk~-------k~~LlFVIRD~~~--------~TplenLe~~l~~dlqkIW~sl~KP---e~~e~---  203 (772)
T KOG2203|consen  149 EVNL--RLFS--PRKN-------KTLLLFVIRDKTG--------VTPLENLEDVLREDLQKIWDSLSKP---EGHEN---  203 (772)
T ss_pred             HHHH--HHhC--CCCC-------ceEEEEEEecccC--------CCchHHhhHHHHHHHHHHHHhcCCc---ccccC---
Confidence            8743  3322  1110       2358999999984        355555555543        33211   11112   


Q ss_pred             HHHHhhCCCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHhcc-CCccccCC---cccchhhHHHHHHH
Q 005055          255 DSIRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFER-TRPKQVGA---TVLTGPVLIGITES  330 (716)
Q Consensus       255 ~~i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~~-~~pK~~~g---~~ltG~~l~~l~~~  330 (716)
                      ..|..|| ++....|+|-...               .+.|.++|..|++.++.+ ..|--+.|   ..+....|.-+.+.
T Consensus       204 s~l~DfF-dv~~v~Ls~~~~k---------------edqF~e~V~~LrqrFv~s~~s~~~f~~d~~~~iPadGfs~~a~q  267 (772)
T KOG2203|consen  204 SPLNDFF-DVEFVGLSHKELK---------------EDQFKEQVASLRQRFVHSGISPYGFAGDYHGVIPADGFSFYAEQ  267 (772)
T ss_pred             Cchhhhh-ceeeeecchHHHH---------------HHHHHHHHHHHHHHHHhcCCCCCccccccCCcccccchhhhHHH
Confidence            3567888 7788888773322               467999999999988866 66666544   45777789999999


Q ss_pred             HHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHh
Q 005055          331 YLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMS  368 (716)
Q Consensus       331 yv~ain~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~  368 (716)
                      .|+.|..+.-..++..-..||...|.++..++++.|..
T Consensus       268 iWd~Ie~NKDLDLPtqqvlvAt~rceEIanE~~e~fit  305 (772)
T KOG2203|consen  268 IWDVIEENKDLDLPTQQVLVATVRCEEIANEKLEEFIT  305 (772)
T ss_pred             HHHHHHhCcCCCCchhhhHHhhhhHHHHHHHHHHHhhh
Confidence            99999998766666667789999999999999998875

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=99.48  E-value=2.9e-10  Score=122.57  Aligned_cols=207  Identities=18%  Similarity=0.245  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHHHHhcccCCCchhHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHH
Q 005055          461 NVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERY  540 (716)
Q Consensus       461 ~~~~~l~~ll~eY~~~~~GP~K~~~L~~FLq~~~~~~il~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~  540 (716)
                      .....++.+..+|...           .-....++..|. ..++..+........++.++.++.+++.++++.+++....
T Consensus        79 ~l~~e~~~~r~k~e~e-----------~~~~~~le~el~-~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~~heeEi~~  146 (312)
T PF00038_consen   79 NLKEELEDLRRKYEEE-----------LAERKDLEEELE-SLRKDLDEETLARVDLENQIQSLKEELEFLKQNHEEEIEE  146 (312)
T ss_dssp             HHHHHHHHHHHHHHHH-----------HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHH-----------HHHHHHHHHHHh-hhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            3445556666666543           112233333333 4456666668888899999999999999999999875522


Q ss_pred             HH-------------HHHHhHHHHHHHHHHHHHHHHHHH-----HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHH
Q 005055          541 KS-------------EYLKRYDDAINDKKKLADDYTSRI-----NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYD  602 (716)
Q Consensus       541 ~~-------------~~~k~lee~i~dlk~~~e~~~~~~-----~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~  602 (716)
                      +.             .....+...|.+++..++....++     .+|+.++..+..........+.+++.|+.++++.++
T Consensus       147 L~~~~~~~~~~e~~~~~~~dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~  226 (312)
T PF00038_consen  147 LREQIQSSVTVEVDQFRSSDLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQ  226 (312)
T ss_dssp             TSTT----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhccccccceeecccccccchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhh
Confidence            22             222367888999999999888877     899999999999999999999999999999999999


Q ss_pred             HH---HHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005055          603 QV---LTKQKAMEDQVCSEIEVLKSR----STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERT  675 (716)
Q Consensus       603 ~~---i~~~k~~~~~~~~~i~~l~~r----~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~  675 (716)
                      .+   |...+...+.|..+|.+++.+    ....++.+..++.++..++.++..+.++|+.|+ +.|..||.+|++||+|
T Consensus       227 ~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ey~~Ll-~~K~~Ld~EIatYR~L  305 (312)
T PF00038_consen  227 SLQAELESLRAKNASLERQLRELEQRLDEEREEYQAEIAELEEELAELREEMARQLREYQELL-DVKLALDAEIATYRKL  305 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHH-HHHHhHHHHHHHHHHH
Confidence            99   888888899999999999876    666889999999999999999999999999999 8999999999999999


Q ss_pred             hHHHH
Q 005055          676 SKEMQ  680 (716)
Q Consensus       676 ~e~~q  680 (716)
                      |++-.
T Consensus       306 LEgEE  310 (312)
T PF00038_consen  306 LEGEE  310 (312)
T ss_dssp             HTCHC
T ss_pred             HhCcc
Confidence            98643

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>KOG4181 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.76  E-value=7.2e-08  Score=101.91  Aligned_cols=151  Identities=20%  Similarity=0.241  Sum_probs=85.8

Q ss_pred             CCeeEEEeCCCCceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCC-------Ccc-ccccC----CCccc
Q 005055           41 RPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS-------SGF-QVAST----HRPCT  108 (716)
Q Consensus        41 ~pi~LI~~d~~~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~-------~gF-~~g~~----~~~~T  108 (716)
                      ++++||.  +.|.  ++..|.++|... ..+.||+|+|+++||||+|||.|.+.+       -.| ++++.    ....|
T Consensus       163 ~s~~li~--d~g~--~~d~a~~ll~~~-tdf~VIgvlG~QgsGKStllslLaans~~~dyr~yvFRpvS~Ea~E~~~~qt  237 (491)
T KOG4181|consen  163 RSTPLIV--DNGI--FNDNARKLLHKT-TDFTVIGVLGGQGSGKSTLLSLLAANSLDYDYRQYVFRPVSPEADECIFAQT  237 (491)
T ss_pred             CCcceee--cccc--hhhHHHHHhhcC-CCeeEEEeecCCCccHHHHHHHHhccChHHhhHHHhcccCChhhhhhhccce
Confidence            3566773  2344  488898888766 679999999999999999999999863       234 22221    22457


Q ss_pred             ceEEeeccccccccCCCCceeEEEEeCCCCccc-----------------ccCCcc----hhHHHHHhhhccceEEEccC
Q 005055          109 KGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY-----------------DQTGTY----STQIFSLAVLLSSMFIYNQM  167 (716)
Q Consensus       109 kGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~-----------------~~~~~~----d~~IFaLa~LLSS~~IyN~~  167 (716)
                      .||-.+..         . -.+|+|||+-+-++                 ..+.+|    .-.+.|+..-+|.++|.=+.
T Consensus       238 ~~Id~~i~---------q-~~i~fldtqpl~sfsi~e~~i~~d~p~~~~~~~d~~~~~~~sL~~~AfLl~VcHivivV~d  307 (491)
T KOG4181|consen  238 HKIDPNIG---------Q-KSILFLDTQPLQSFSIRERHILLDTPPLMPVGKDSDHQDLYSLGTMAFLLSVCHIVIVVID  307 (491)
T ss_pred             eccccccc---------c-ceEEeeccccccchHHHhhhhccCCCCCCCCCCCchHHHHHHHHHHHHHHHHhhEEEEEec
Confidence            77766532         2 14666666655332                 222222    22344444445777777555


Q ss_pred             CCCchHhhhhhHHHHHHHHHHHHHh---cCCCCCCCcccccCCeEEEEe
Q 005055          168 GGIDESAIDRLSLVTQMTKHIRIRA---SGGKTTPSELGQFSPIFVWLL  213 (716)
Q Consensus       168 g~i~e~~l~~L~~v~el~~~i~~k~---~~~~~~~~e~~~~~P~f~wlv  213 (716)
                      +.-|++-+.    +.+.++.++-.-   ++...   -...+.|.+|||-
T Consensus       308 ~~~d~~lir----~L~~Ae~~rP~laifrh~~~---~~r~~~p~lVFv~  349 (491)
T KOG4181|consen  308 GLADEQLIR----LLNAAERLRPTLAIFRHCKG---YVRDHMPQLVFVR  349 (491)
T ss_pred             chhHHHHHH----HHHHHHhhCcccCccccccc---cccccCcceEEEe
Confidence            554443333    334444443110   00100   0113578988884

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=98.55  E-value=6.6e-05  Score=85.28  Aligned_cols=181  Identities=11%  Similarity=0.159  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHH-------------HHHHHHhHHHHHHHHHHHHHHHHHHH-
Q 005055          501 LVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERY-------------KSEYLKRYDDAINDKKKLADDYTSRI-  566 (716)
Q Consensus       501 ~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~-------------~~~~~k~lee~i~dlk~~~e~~~~~~-  566 (716)
                      ..++..+.-..-+..+..++.++..+++++...++..-..             -.++...|...|.+++.++|....+. 
T Consensus       187 ~~r~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiRaqye~~~~~nR  266 (546)
T KOG0977|consen  187 RARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEEERRKARRDTTADNREYFKNELALAIREIRAQYEAISRQNR  266 (546)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4444444545566677777888888888888655544321             12334467888888888888877776 


Q ss_pred             ----HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHH
Q 005055          567 ----NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSR----STAAEARLAA  635 (716)
Q Consensus       567 ----~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r----~~~~eerl~~  635 (716)
                          .||..|++.+........-.....+.|....+.....+   +.+.......+..+|.+|+..    ....|+-|++
T Consensus       267 ~diE~~Y~~kI~~i~~~~~~~~~~~~~~rEEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~ql~e~~r~~e~~L~~  346 (546)
T KOG0977|consen  267 KDIESWYKRKIQEIRTSAERANVEQNYAREELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLDEDQRSFEQALND  346 (546)
T ss_pred             HHHHHHHHHHHHHHHhhhccccchhHHHHHHHHHHHhcccchhhhhccccccChhHHHHHHHHHhhhhhhhhhhhhhhhh
Confidence                78999998888433332222222222222222222222   222222233466666666655    4566777888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhh
Q 005055          636 AREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQR  682 (716)
Q Consensus       636 ~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~  682 (716)
                      -..++...++||...-.+|+.|+ +.|..|+-+|+.||+||+....+
T Consensus       347 kd~~i~~mReec~~l~~Elq~Ll-D~ki~Ld~EI~~YRkLLegee~r  392 (546)
T KOG0977|consen  347 KDAEIAKMREECQQLSVELQKLL-DTKISLDAEIAAYRKLLEGEEER  392 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhh-chHhHHHhHHHHHHHHhccccCC
Confidence            88888888999999999999999 99999999999999999988776

>COG1159 Era GTPase [General function prediction only]

Probab=98.28  E-value=1.1e-06  Score=92.49  Aligned_cols=58  Identities=29%  Similarity=0.513  Sum_probs=44.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccC----CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ...++|||+|.+.+|||||||+|+|..  .++-+.    ++..-+||..-           .+..++|+||+|+.
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~K--isIvS~k~QTTR~~I~GI~t~-----------~~~QiIfvDTPGih   65 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQK--ISIVSPKPQTTRNRIRGIVTT-----------DNAQIIFVDTPGIH   65 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCc--eEeecCCcchhhhheeEEEEc-----------CCceEEEEeCCCCC
Confidence            357899999999999999999999987  444333    23333677753           13679999999984

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.23  E-value=5.2e-06  Score=83.43  Aligned_cols=62  Identities=27%  Similarity=0.311  Sum_probs=42.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      |+++|.+++|||+|+|.|+|.. +|..+....++|+.+=.+...+     +|  ..+.|+||+|+++...
T Consensus         3 i~lvG~~g~GKSsl~N~ilg~~-~~~~~~~~~~~T~~~~~~~~~~-----~~--~~i~viDTPG~~d~~~   64 (196)
T cd01852           3 LVLVGKTGAGKSATGNTILGRE-VFESKLSASSVTKTCQKESAVW-----DG--RRVNVIDTPGLFDTSV   64 (196)
T ss_pred             EEEECCCCCCHHHHHHHhhCCC-ccccccCCCCcccccceeeEEE-----CC--eEEEEEECcCCCCccC
Confidence            7899999999999999999984 5766643334444332221111     22  4689999999976543

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.11  E-value=3.6e-05  Score=80.69  Aligned_cols=65  Identities=22%  Similarity=0.292  Sum_probs=45.6

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..+-..|.|+|..++|||+|+|.|+|.. .+.++ ...++|..+-+...+     .+|  ..|.|+||+|++..
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~-~~~v~-~~~~~T~~~~~~~~~-----~~g--~~i~vIDTPGl~~~   92 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGER-KAATS-AFQSETLRVREVSGT-----VDG--FKLNIIDTPGLLES   92 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCC-CcccC-CCCCceEEEEEEEEE-----ECC--eEEEEEECCCcCcc
Confidence            3455679999999999999999999975 34443 334566655443221     123  56899999999754

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.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=98.10  E-value=5.8e-06  Score=75.64  Aligned_cols=59  Identities=25%  Similarity=0.366  Sum_probs=40.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |+|+|++++|||+|+|.|+|.. ...+++. .++|..+..-..++     ++  ..+.|+||+|+++.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~~-~~~~~~~-~~~T~~~~~~~~~~-----~~--~~~~~vDtpG~~~~   60 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGKK-LAKVSNI-PGTTRDPVYGQFEY-----NN--KKFILVDTPGINDG   60 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTST-SSEESSS-TTSSSSEEEEEEEE-----TT--EEEEEEESSSCSSS
T ss_pred             EEEECCCCCCHHHHHHHHhccc-ccccccc-ccceeeeeeeeeee-----ce--eeEEEEeCCCCccc
Confidence            7899999999999999999854 3445443 56777763311111     12  45679999998643

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=98.08  E-value=1e-05  Score=82.70  Aligned_cols=102  Identities=23%  Similarity=0.377  Sum_probs=57.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcc-hhHHH
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTY-STQIF  152 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~-d~~IF  152 (716)
                      |-++|..|+|||++.|.|+|.. .|..+.+..++|...-.....     .+|  ..|.++||+|+++.+.+... -..|.
T Consensus         3 IlllG~tGsGKSs~~N~ilg~~-~f~~~~~~~~~t~~~~~~~~~-----~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~   74 (212)
T PF04548_consen    3 ILLLGKTGSGKSSLGNSILGKE-VFKSGSSAKSVTQECQKYSGE-----VDG--RQVTVIDTPGLFDSDGSDEEIIREIK   74 (212)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS--SS--TTTSS--SS-EEEEEE-----ETT--EEEEEEE--SSEETTEEHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhccc-ceeeccccCCcccccceeeee-----ecc--eEEEEEeCCCCCCCcccHHHHHHHHH
Confidence            5689999999999999999986 488887777777765443321     133  56889999999655542211 11122


Q ss_pred             HHhhhcc----ceEEEcc-CCCCchHhhhhhHHHHHH
Q 005055          153 SLAVLLS----SMFIYNQ-MGGIDESAIDRLSLVTQM  184 (716)
Q Consensus       153 aLa~LLS----S~~IyN~-~g~i~e~~l~~L~~v~el  184 (716)
                      - ++.++    .++||=. .+.+++.+...+..+.++
T Consensus        75 ~-~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~  110 (212)
T PF04548_consen   75 R-CLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEI  110 (212)
T ss_dssp             H-HHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHH
T ss_pred             H-HHHhccCCCeEEEEEEecCcchHHHHHHHHHHHHH
Confidence            1 11122    2333332 237888887777766555

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 ....

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.04  E-value=0.021  Score=72.12  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=18.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      ++.+|+||.|+|||+||..|.
T Consensus        24 ~~~~i~G~NGsGKS~ildAi~   44 (1164)
T TIGR02169        24 GFTVISGPNGSGKSNIGDAIL   44 (1164)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            367889999999999999763

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=97.99  E-value=7.5e-05  Score=86.49  Aligned_cols=63  Identities=19%  Similarity=0.301  Sum_probs=44.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      .-|.|+|..+.|||+|+|.|+|.. .|.++ ...++|..+-.+...     .+|  ..|.|+||+|+++...
T Consensus       119 lrIvLVGKTGVGKSSLINSILGek-vf~vs-s~~~~TTr~~ei~~~-----idG--~~L~VIDTPGL~dt~~  181 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIFGEV-KFSTD-AFGMGTTSVQEIEGL-----VQG--VKIRVIDTPGLKSSAS  181 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccc-ccccc-CCCCCceEEEEEEEE-----ECC--ceEEEEECCCCCcccc
Confidence            359999999999999999999984 46554 344666665333211     133  4689999999976543

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.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.94  E-value=0.05  Score=68.77  Aligned_cols=136  Identities=16%  Similarity=0.245  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 005055          556 KKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAA  635 (716)
Q Consensus       556 k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~  635 (716)
                      +..++.+..+...++.....+..+...+..+++....++.++..+.+.+    +.....+..+++.++.+...++.++..
T Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~l----~~~l~~l~~~~~~~~~~~~~l~~~~~~  438 (1164)
T TIGR02169       363 KEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRL----QEELQRLSEELADLNAAIAGIEAKINE  438 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333444444444444444444444433333322    222344555556666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHH
Q 005055          636 AREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE  696 (716)
Q Consensus       636 ~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~  696 (716)
                      +..++...+.+....+++++.+- +....++..+...+.-+.+.+.+...++.++.+.-..
T Consensus       439 l~~~~~~~~~~l~~l~~~~~~~~-~~~~~~~~~l~~~~~~l~~l~~~l~~l~~~~~~l~~~  498 (1164)
T TIGR02169       439 LEEEKEDKALEIKKQEWKLEQLA-ADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQ  498 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666677776665 4445555666666666666666666666666554433

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma

Probab=97.93  E-value=0.046  Score=58.91  Aligned_cols=117  Identities=13%  Similarity=0.197  Sum_probs=91.6

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEE  646 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E  646 (716)
                      ..+-..+..++..+....+.|...++++.+++.+++.+-.+.+...+......+.++.+..+.++++..|.+.+...+. 
T Consensus       179 ~~fl~~~~~~~~~ilq~d~~L~~~ek~~~~~~~k~e~~e~e~~~l~e~~~~~~~~le~~~~~~ee~~~~L~ekme~e~~-  257 (297)
T PF02841_consen  179 QEFLQSKESMENSILQADQQLTEKEKEIEEEQAKAEAAEKEKEKLEEKQKEQEQMLEQQERSYEEHIKQLKEKMEEERE-  257 (297)
T ss_dssp             HHHHHHCHHHHHHHHHH-TTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            3444456688888888899999999999999999999988888889999999999999999999999999987666554 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH
Q 005055          647 VEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS  692 (716)
Q Consensus       647 ~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~  692 (716)
                        .|.++|+.++ +.|.....     +.+.++.+.+.+.++.|+.+
T Consensus       258 --~~~~e~e~~l-~~k~~eq~-----~~l~e~~~~~~~~l~~ei~~  295 (297)
T PF02841_consen  258 --QLLQEQERLL-EQKLQEQE-----ELLKEGFQEEAEKLQKEIQD  295 (297)
T ss_dssp             --HHHHHHHHHH-HHHHHHHH-----HHHHCT-HHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHH-HHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Confidence              8889999988 45544333     23566677888888888765

GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=97.92  E-value=0.052  Score=58.60  Aligned_cols=78  Identities=22%  Similarity=0.339  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHh
Q 005055          503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSS  582 (716)
Q Consensus       503 k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~  582 (716)
                      ++.++.+..++..+...+..+..+++.++.+++...+.    .+.++..|..+++..++......+|+.++..|.+++..
T Consensus        60 r~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~----~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~f  135 (312)
T PF00038_consen   60 RRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAE----RKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEF  135 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHH----HHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHH
Confidence            34455555556666666666666666666666554322    33455555666666666555556666666666555555


Q ss_pred             hH
Q 005055          583 LS  584 (716)
Q Consensus       583 ~~  584 (716)
                      +.
T Consensus       136 l~  137 (312)
T PF00038_consen  136 LK  137 (312)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=97.90  E-value=0.068  Score=67.46  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHH---hhCCC
Q 005055           73 VVSVCGRARQGKSFILNQ---LLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~---llg~~   95 (716)
                      +++|+||.|+|||+||..   ++|..
T Consensus        25 ~~~i~G~NGsGKS~ll~ai~~~lg~~   50 (1179)
T TIGR02168        25 ITGIVGPNGCGKSNIVDAIRWVLGEQ   50 (1179)
T ss_pred             cEEEECCCCCChhHHHHHHHHHHcCC
Confidence            789999999999999965   56644

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.82  E-value=0.0036  Score=65.21  Aligned_cols=144  Identities=19%  Similarity=0.281  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHhhhHHHHHHhhH
Q 005055          508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDK---KKLADDYTSRINNLQGENISLREKSSSLS  584 (716)
Q Consensus       508 ~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dl---k~~~e~~~~~~~~l~~k~~~le~~~~~~~  584 (716)
                      ..+....++..+....+..+..|..++...........++|++.-..+   ....+.+..+...++.++..|++++...+
T Consensus        75 e~er~~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~  154 (237)
T PF00261_consen   75 ESERARKVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVG  154 (237)
T ss_dssp             HHCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHH
Confidence            335556667777777888888888888888888888888888765555   77788888899999999999999998888


Q ss_pred             HhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNE---ISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       585 ~~le~~k~e---~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      ..|.+++.-   .++..-.|+..|..       |..++.++..|...+|.++..++.+++....++..|+.+|..+-
T Consensus       155 ~~lk~lE~~~~~~~~re~~~e~~i~~-------L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~  224 (237)
T PF00261_consen  155 NNLKSLEASEEKASEREDEYEEKIRD-------LEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQ  224 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhhHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777665544   55556667776665       77888888889999999999999999999999999999998654

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PRK11637 AmiB activator; Provisional

Probab=97.82  E-value=0.02  Score=64.91  Aligned_cols=33  Identities=18%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHH
Q 005055          663 AALEKAAIVQERTSKEMQQREDVLREEFSSTLA  695 (716)
Q Consensus       663 a~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~  695 (716)
                      +.|+..+..++..+.+.+..+..|+..+....+
T Consensus       222 ~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~l~~  254 (428)
T PRK11637        222 TGLESSLQKDQQQLSELRANESRLRDSIARAER  254 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555556666666666666666666655433

>PRK00089 era GTPase Era; Reviewed

Probab=97.80  E-value=7.9e-05  Score=79.58  Aligned_cols=59  Identities=31%  Similarity=0.520  Sum_probs=41.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..++|+|+|++++|||+|+|.|+|..-. .+++   +++....||+..           .+..++|+||+|+..
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~-~vs~~~~tt~~~i~~i~~~-----------~~~qi~~iDTPG~~~   65 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKIS-IVSPKPQTTRHRIRGIVTE-----------DDAQIIFVDTPGIHK   65 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCcee-ecCCCCCcccccEEEEEEc-----------CCceEEEEECCCCCC
Confidence            5689999999999999999999997621 1222   222223455542           125799999999854

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=97.77  E-value=0.022  Score=71.87  Aligned_cols=9  Identities=33%  Similarity=0.279  Sum_probs=3.5

Q ss_pred             EEEeCCCCc
Q 005055           45 LVYCDEKGK   53 (716)
Q Consensus        45 LI~~d~~~~   53 (716)
                      +|-++..|+
T Consensus        28 i~G~NGsGK   36 (1179)
T TIGR02168        28 IVGPNGCGK   36 (1179)
T ss_pred             EECCCCCCh
Confidence            333333343

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.76  E-value=0.015  Score=67.87  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .++..|+|+.++|||+|+..+.
T Consensus        27 ~g~~~i~G~NG~GKStll~aI~   48 (562)
T PHA02562         27 VKKTLITGKNGAGKSTMLEALT   48 (562)
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3688999999999999999865

>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=97.76  E-value=4.4e-05  Score=74.33  Aligned_cols=58  Identities=24%  Similarity=0.373  Sum_probs=41.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      -|+++|.+.+|||+|.|+|.|..  ..+|+   ++..+..|.|-+..           ..+.|+||+|+.+...
T Consensus         2 ~ialvG~PNvGKStLfN~Ltg~~--~~v~n~pG~Tv~~~~g~~~~~~-----------~~~~lvDlPG~ysl~~   62 (156)
T PF02421_consen    2 RIALVGNPNVGKSTLFNALTGAK--QKVGNWPGTTVEKKEGIFKLGD-----------QQVELVDLPGIYSLSS   62 (156)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTS--EEEEESTTSSSEEEEEEEEETT-----------EEEEEEE----SSSSS
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--ceecCCCCCCeeeeeEEEEecC-----------ceEEEEECCCcccCCC
Confidence            38999999999999999999987  55543   23345778888731           5789999999866543

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 ....

>TIGR00606 rad50 rad50

Probab=97.68  E-value=0.14  Score=66.09  Aligned_cols=20  Identities=25%  Similarity=0.381  Sum_probs=18.5

Q ss_pred             EEEEeeCCCCCChhHHHHHh
Q 005055           72 GVVSVCGRARQGKSFILNQL   91 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~l   91 (716)
                      .+++|+||.|+|||+|+..|
T Consensus        29 ~~~~I~G~NGaGKTTil~ai   48 (1311)
T TIGR00606        29 PLTILVGPNGAGKTTIIECL   48 (1311)
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            37899999999999999988

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR00436 era GTP-binding protein Era

Probab=97.67  E-value=8.8e-05  Score=78.53  Aligned_cols=56  Identities=30%  Similarity=0.538  Sum_probs=40.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccc-ccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQ-VAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~-~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +.|+|+|.+++|||+|+|.|+|..  +. +++   |++...+|||...         +  ..++|+||+|+..
T Consensus         1 g~V~liG~pnvGKSTLln~L~~~~--~~~vs~~~~TTr~~i~~i~~~~---------~--~qii~vDTPG~~~   60 (270)
T TIGR00436         1 GFVAILGRPNVGKSTLLNQLHGQK--ISITSPKAQTTRNRISGIHTTG---------A--SQIIFIDTPGFHE   60 (270)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCc--EeecCCCCCcccCcEEEEEEcC---------C--cEEEEEECcCCCC
Confidence            368999999999999999999976  32 222   3333456776431         1  3589999999864

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.67  E-value=0.13  Score=66.96  Aligned_cols=182  Identities=20%  Similarity=0.292  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK---RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKT  586 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k---~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~  586 (716)
                      ......+-.+...+..+...+..++++.+.......+   .++..|.+++++.+....+...+......++..+..+.++
T Consensus      1258 ~~~~~~l~~q~~~l~~E~~~l~~~lee~e~~~~~~~r~~~~~~~qle~~k~qle~e~r~k~~l~~~l~~l~~e~~~l~e~ 1337 (1930)
T KOG0161|consen 1258 ERLRNDLTAKRSRLQNENEELSRQLEEAEAKLSALSRDKQALESQLEELKRQLEEETREKSALENALRQLEHELDLLREQ 1337 (1930)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555556666667777777777777766555544   5667777778887776666666666666666555555554


Q ss_pred             H--------------HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          587 V--------------DSLKNEISDWKRKYDQVLTK----QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       587 l--------------e~~k~e~~e~~r~y~~~i~~----~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      +              ..+..++.+|+++|+..+..    ....+..++..+.+++.....+..++.++++.....++|+.
T Consensus      1338 leee~e~~~~l~r~lsk~~~e~~~~~~k~e~~~~~~~eelee~kk~l~~~lq~~qe~~e~~~~~~~~Lek~k~~l~~el~ 1417 (1930)
T KOG0161|consen 1338 LEEEQEAKNELERKLSKANAELAQWKKKFEEEVLQRLEELEELKKKLQQRLQELEEQIEAANAKNASLEKAKNRLQQELE 1417 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            4              44556788999999998553    33344566777777788888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH
Q 005055          649 EWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS  692 (716)
Q Consensus       649 ~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~  692 (716)
                      +-..+-+... .+=++|++....+++++.+.-.+.+.+..|+..
T Consensus      1418 d~~~d~~~~~-~~~~~le~k~k~f~k~l~e~k~~~e~l~~Eld~ 1460 (1930)
T KOG0161|consen 1418 DLQLDLERSR-AAVAALEKKQKRFEKLLAEWKKKLEKLQAELDA 1460 (1930)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777776666 566778888888888888777777777777665

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=97.66  E-value=0.26  Score=60.15  Aligned_cols=123  Identities=23%  Similarity=0.316  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 005055          551 AINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAE  630 (716)
Q Consensus       551 ~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~e  630 (716)
                      .|..+++-++.+..+.+.+..++...+-.+.-..+.++..++.+.+++....          ..+.+++.+.++++..++
T Consensus       338 Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~----------~~~~~~~~e~e~k~~~L~  407 (1074)
T KOG0250|consen  338 EIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTN----------NELGSELEERENKLEQLK  407 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------hhhhhhHHHHHHHHHHHH
Confidence            3333344444444444444444444444444444444444444444444332          223344444445555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHH
Q 005055          631 ARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQRED  684 (716)
Q Consensus       631 erl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~  684 (716)
                      .+...+++++.+.++|..+-++++..-= +.+...+..|.+.++.++..+.-=.
T Consensus       408 ~evek~e~~~~~L~~e~~~~~~~~~~~~-ee~~~i~~~i~~l~k~i~~~~~~l~  460 (1074)
T KOG0250|consen  408 KEVEKLEEQINSLREELNEVKEKAKEEE-EEKEHIEGEILQLRKKIENISEELK  460 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555556666666665555 5666677777777777776664333

>cd04163 Era Era subfamily

Probab=97.66  E-value=0.00023  Score=67.40  Aligned_cols=61  Identities=26%  Similarity=0.475  Sum_probs=40.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      .+|+++|+.++|||+|+|.|+|..  +.+......+|+ .+.+...      ...++.++++||+|+...
T Consensus         4 ~~i~~~G~~g~GKttl~~~l~~~~--~~~~~~~~~~~~-~~~~~~~------~~~~~~~~liDtpG~~~~   64 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALVGQK--ISIVSPKPQTTR-NRIRGIY------TDDDAQIIFVDTPGIHKP   64 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCc--eEeccCCCCcee-ceEEEEE------EcCCeEEEEEECCCCCcc
Confidence            479999999999999999999876  333322222233 2333221      122467999999998643

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=97.62  E-value=0.00035  Score=68.94  Aligned_cols=61  Identities=20%  Similarity=0.238  Sum_probs=42.2

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ....-|.|+|..++|||+|+|+|+|......+++ ..++|.++=+|..+       +   .+.|+||+|++.
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~-~~~~t~~~~~~~~~-------~---~~~liDtpG~~~   76 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSK-TPGRTQLINFFEVN-------D---GFRLVDLPGYGY   76 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccC-CCCcceEEEEEEeC-------C---cEEEEeCCCCcc
Confidence            3444679999999999999999998752223333 23567776555321       1   488999999864

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.

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.62  E-value=0.048  Score=62.55  Aligned_cols=36  Identities=22%  Similarity=0.251  Sum_probs=24.7

Q ss_pred             ccCCeEEEEeecccccccccCccCChHHHHHHhhcccc
Q 005055          204 QFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQ  241 (716)
Q Consensus       204 ~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~  241 (716)
                      .+.|.|.|-=|||..-++.+-  -|.++|.-..|.+.|
T Consensus        27 tlt~~~~ps~~DWIGiFKVGw--~s~rdY~Tf~Wa~~p   62 (546)
T PF07888_consen   27 TLTPGFHPSSKDWIGIFKVGW--SSTRDYYTFVWAPVP   62 (546)
T ss_pred             ecCCCCCCCCCCeeEEeecCC--CchhheeeEEeeccC
Confidence            456788888899987555432  366788777776554

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.61  E-value=0.24  Score=64.63  Aligned_cols=177  Identities=16%  Similarity=0.256  Sum_probs=98.7

Q ss_pred             HHHHHhhcHHHHHHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHH
Q 005055          515 SLMLKYRSIEDNMKLLKKQLEDSERYKSEYL---KRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLK  591 (716)
Q Consensus       515 ~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~---k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k  591 (716)
                      .+...|..++..++.++..++...+...+.+   +.+++.+..++..++.+..++..|+.+....+.+++.+...++...
T Consensus      1010 ~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkle~el~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~ 1089 (1930)
T KOG0161|consen 1010 SLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKLEGELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQ 1089 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            3444444444555555555544444444443   4666666666777777777777777777777777777777777766


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHH
Q 005055          592 NEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEW-----------KRKYGVAVRE  660 (716)
Q Consensus       592 ~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w-----------~~kY~~~~~~  660 (716)
                      .+++...+...++-...    +++...+...+.....+|.+.+++.++++..+.++++.           +.++..+- +
T Consensus      1090 ~~~~~l~k~i~eL~~~i----~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~~~~t~~q~e~~~k~e~e~~-~ 1164 (1930)
T KOG0161|consen 1090 AEVAQLQKQIKELEARI----KELEEELEAERASRAKAERQRRDLSEELEELKEELEEQGGTTAAQLELNKKREAEVQ-K 1164 (1930)
T ss_pred             HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH-H
Confidence            66666666655543332    22333333333334444444555555555555555544           22333333 5


Q ss_pred             HHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHH
Q 005055          661 AKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE  696 (716)
Q Consensus       661 ~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~  696 (716)
                      .+..++.+....+..++.+..+=..-.+++..++.+
T Consensus      1165 l~~~leee~~~~e~~~~~lr~~~~~~~~el~~qle~ 1200 (1930)
T KOG0161|consen 1165 LRRDLEEETLDHEAQIEELRKKHADSLAELQEQLEQ 1200 (1930)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666655555666555544

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.58  E-value=0.28  Score=57.67  Aligned_cols=43  Identities=14%  Similarity=0.175  Sum_probs=20.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          405 LARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKL  448 (716)
Q Consensus       405 ~~~~~~~~~L~~~l~~~~e~~~~~n~~~s~~~C~~~l~~le~~l  448 (716)
                      .....++++|. .+...|..|...+..---.....++..+++.+
T Consensus       165 ~a~~~le~~l~-~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~  207 (569)
T PRK04778        165 PALDELEKQLE-NLEEEFSQFVELTESGDYVEAREILDQLEEEL  207 (569)
T ss_pred             chHHHHHHHHH-HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            44455555554 35566666655443222223344444433333

>cd01858 NGP_1 NGP-1

Probab=97.58  E-value=9.9e-05  Score=71.44  Aligned_cols=55  Identities=31%  Similarity=0.386  Sum_probs=38.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..|+++|.++.|||+|+|.|+|.. ...+++.. .+|++ |.|.. +      +  ..++|+||+|+
T Consensus       103 ~~v~~~G~~nvGKStliN~l~~~~-~~~~~~~~-g~T~~-~~~~~-~------~--~~~~liDtPGi  157 (157)
T cd01858         103 ISVGFIGYPNVGKSSIINTLRSKK-VCKVAPIP-GETKV-WQYIT-L------M--KRIYLIDCPGV  157 (157)
T ss_pred             eEEEEEeCCCCChHHHHHHHhcCC-ceeeCCCC-CeeEe-EEEEE-c------C--CCEEEEECcCC
Confidence            457899999999999999999874 34555543 34554 33421 1      1  13789999995

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.

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.57  E-value=0.26  Score=59.18  Aligned_cols=137  Identities=19%  Similarity=0.259  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHH-------------------HHHHHHHH----HHHHHHHHHHHHH
Q 005055          556 KKLADDYTSRINNLQGENISLREKSSSLSKTVDSLK-------------------NEISDWKR----KYDQVLTKQKAME  612 (716)
Q Consensus       556 k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k-------------------~e~~e~~r----~y~~~i~~~k~~~  612 (716)
                      +.++++...+.+...-++.++-++...+.++|-.++                   .|...|-|    +|...|++.+...
T Consensus       334 ~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqgr~sqFssk~eRDkwir~ei~~l~~~i~~~ke~e  413 (1200)
T KOG0964|consen  334 KDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQGRYSQFSSKEERDKWIRSEIEKLKRGINDTKEQE  413 (1200)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccccccCcHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence            445555555555555555555555555555554444                   46777765    4666699999999


Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH--HHHHH-HHHHHhhHHHHhh
Q 005055          613 DQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEV-------EEWKRKYGVAVREAKAA--LEKAA-IVQERTSKEMQQR  682 (716)
Q Consensus       613 ~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~-------~~w~~kY~~~~~~~Ka~--leq~~-~~~~~~~e~~q~~  682 (716)
                      +.++..|+++++.+....+++.++...+...+..+       .+-+++|+.+....|.+  .|+++ ..-..+.++....
T Consensus       414 ~~lq~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~~~  493 (1200)
T KOG0964|consen  414 NILQKEIEDLESELKEKLEEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLSRA  493 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988888888777777666555444       44577787777544432  23222 2334555666777


Q ss_pred             HHHHHHHHHH
Q 005055          683 EDVLREEFSS  692 (716)
Q Consensus       683 e~~~~~~~~~  692 (716)
                      ++.|++-...
T Consensus       494 ~~~L~~~~~r  503 (1200)
T KOG0964|consen  494 EKNLRATMNR  503 (1200)
T ss_pred             HHHHHHhccc
Confidence            7777776553

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=97.57  E-value=0.023  Score=65.12  Aligned_cols=198  Identities=19%  Similarity=0.332  Sum_probs=110.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 005055          501 LVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK---RYDDAINDKKKLADDYTSRINNLQGENISLR  577 (716)
Q Consensus       501 ~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k---~lee~i~dlk~~~e~~~~~~~~l~~k~~~le  577 (716)
                      ...++++.+.+++..++..+..+.++++.++++++..++....-..   .|...+++++.++..+..++..++-+..-|-
T Consensus        96 ~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk  175 (546)
T KOG0977|consen   96 TARKLLDETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLK  175 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            5567777778888888888888888888888888887765544422   3556666666666666666655555555555


Q ss_pred             HHHHhhHHhHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------------hHHHHHHHHHHH
Q 005055          578 EKSSSLSKTVDSLKNE-------ISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSR-------------STAAEARLAAAR  637 (716)
Q Consensus       578 ~~~~~~~~~le~~k~e-------~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r-------------~~~~eerl~~~~  637 (716)
                      .+...+..+|..++++       ..++.-+.+.++.+.--.......+|.+++.+             -..+..-+.+++
T Consensus       176 ~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiR  255 (546)
T KOG0977|consen  176 AENSRLREELARARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEEERRKARRDTTADNREYFKNELALAIREIR  255 (546)
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHH
Confidence            5555555555554443       23333444444333333334444555555433             112222233333


Q ss_pred             HH----HHHHHHHHHHHHHHHHHHHHHHH-------------------------------HHHHHHHHHHHHhhHHHHhh
Q 005055          638 EQ----ALSAQEEVEEWKRKYGVAVREAK-------------------------------AALEKAAIVQERTSKEMQQR  682 (716)
Q Consensus       638 ~q----l~~ak~E~~~w~~kY~~~~~~~K-------------------------------a~leq~~~~~~~~~e~~q~~  682 (716)
                      .|    ....+.|++.|   |+.-+.+++                               +.||...+..++.+++.+-.
T Consensus       256 aqye~~~~~nR~diE~~---Y~~kI~~i~~~~~~~~~~~~~~rEEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~q  332 (546)
T KOG0977|consen  256 AQYEAISRQNRKDIESW---YKRKIQEIRTSAERANVEQNYAREELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQ  332 (546)
T ss_pred             HHHHHHHHHhHHHHHHH---HHHHHHHHHhhhccccchhHHHHHHHHHHHhcccchhhhhccccccChhHHHHHHHHHhh
Confidence            22    34455555555   444444444                               23344445555556665555


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005055          683 EDVLREEFSSTLAEKVLSY  701 (716)
Q Consensus       683 e~~~~~~~~~~~~~~~~~~  701 (716)
                      .+.-+.-|-..|+.||..+
T Consensus       333 l~e~~r~~e~~L~~kd~~i  351 (546)
T KOG0977|consen  333 LDEDQRSFEQALNDKDAEI  351 (546)
T ss_pred             hhhhhhhhhhhhhhHHHHH
Confidence            5555666777777777654

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.54  E-value=0.12  Score=66.64  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=21.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+++|+|+.|+||||+|+.|.+.-
T Consensus        28 ~~~~l~G~NGaGKSTll~ai~~~l   51 (1486)
T PRK04863         28 LVTTLSGGNGAGKSTTMAAFVTAL   51 (1486)
T ss_pred             CeEEEECCCCCCHHHHHHHHHccc
Confidence            588999999999999999988754

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=97.51  E-value=0.065  Score=68.12  Aligned_cols=78  Identities=23%  Similarity=0.278  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHH
Q 005055          613 DQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFS  691 (716)
Q Consensus       613 ~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~  691 (716)
                      +.+..+|+.++.+...+++++.++...+...+.+..+++.+-+.+- ..+..++..+..++.-.+++...-+.+..++.
T Consensus       824 ~~~~~ei~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~-~~~~~l~~~l~~~~~~~~~l~~~l~~~~~~~~  901 (1163)
T COG1196         824 ERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELE-AEKEELEDELKELEEEKEELEEELRELESELA  901 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555555555555554444 45555555555555555555555444444443

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=97.50  E-value=0.1  Score=53.13  Aligned_cols=118  Identities=21%  Similarity=0.284  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLK  623 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~  623 (716)
                      .|+..|.++-   ++...+.......+..+......+...|.+.++--+++-++|+..   |...++-.+.|...++++.
T Consensus        48 e~Ek~i~~~i---~e~~~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~  124 (207)
T PF05010_consen   48 EYEKTIAQMI---EEKQKQKELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYE  124 (207)
T ss_pred             HHHHHHHHHH---HHHHhhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            4555555542   222223445556666666777778888888888888999999877   8888888888999999999


Q ss_pred             hhhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          624 SRSTAAEARLAAA----REQALSAQEEVEEWKRKYGVAVREAKAALEK  667 (716)
Q Consensus       624 ~r~~~~eerl~~~----~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq  667 (716)
                      .++...+.|+.++    +++|..|..|++.-+++|+.=+..-+|.|-+
T Consensus       125 ~~l~~~eqry~aLK~hAeekL~~ANeei~~v~~~~~~e~~aLqa~lkk  172 (207)
T PF05010_consen  125 ERLKKEEQRYQALKAHAEEKLEKANEEIAQVRSKHQAELLALQASLKK  172 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999998776    5668899999997777777666555555444

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=97.50  E-value=0.65  Score=59.42  Aligned_cols=156  Identities=19%  Similarity=0.276  Sum_probs=116.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH-
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLK-  623 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~-  623 (716)
                      |-..-.+|+.+++.+..++.....+..++|..+....++++..+.+.++....|+..   +...+.....++.++...+ 
T Consensus       598 ~~~~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  677 (1201)
T PF12128_consen  598 YAASEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKE  677 (1201)
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            433444778888889999999999999999999999999999999999999988887   5555555566666666554 


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHH
Q 005055          624 SRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREA----KAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVL  699 (716)
Q Consensus       624 ~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~----Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~  699 (716)
                      .+...+++++++++.++...++|...|+.+...-..+.    |+......+..+..++.......+.+.+++..+++=+.
T Consensus       678 ~~~~~~~~~l~~l~~~l~~~~~e~~~~~~~~~~~~~e~~~e~~~~~~~~~~~~d~~i~~i~~~i~~~~~~~~~~~~~le~  757 (1201)
T PF12128_consen  678 ERKEQIEEQLNELEEELKQLKQELEELLEELKEQLKELRNELKAQWQELEAELDEQIEQIKQEIAAAKQEAKEQLKELEQ  757 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45788999999999999999999999988775554433    34445555666666666666666677777777766666


Q ss_pred             HHHh
Q 005055          700 SYLS  703 (716)
Q Consensus       700 ~~~~  703 (716)
                      .|-.
T Consensus       758 ~~~~  761 (1201)
T PF12128_consen  758 QYNQ  761 (1201)
T ss_pred             HHHH
Confidence            6653

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.50  E-value=0.031  Score=65.26  Aligned_cols=70  Identities=19%  Similarity=0.267  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKT  586 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~  586 (716)
                      +.+...++.++..++.+++.+...+       ..+.+.+...+.+++++++.+..+...++.+...+++++..+..+
T Consensus       180 ~~~i~~l~~~i~~l~~~i~~~~~~i-------~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~  249 (562)
T PHA02562        180 NQQIQTLDMKIDHIQQQIKTYNKNI-------EEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMD  249 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3334444444444444444333333       333333444455555555555555555555555555555555444

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.50  E-value=0.067  Score=55.77  Aligned_cols=119  Identities=22%  Similarity=0.287  Sum_probs=72.2

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHH
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLKRYD---DAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISD  596 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k~le---e~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e  596 (716)
                      ...++.++..|...+..++....-.+.+|+   .-+..+.+..++.......|+.+....++++..+..+|..++....+
T Consensus        31 ~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee  110 (237)
T PF00261_consen   31 AEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENREQSDEERIEELEQQLKEAKRRAEE  110 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444333333333333   33444467777777778889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 005055          597 WKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALS  642 (716)
Q Consensus       597 ~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~  642 (716)
                      ..++|++.-.....    +...++..+.|+..++.++..++.++..
T Consensus       111 ~e~k~~E~~rkl~~----~E~~Le~aEeR~e~~E~ki~eLE~el~~  152 (237)
T PF00261_consen  111 AERKYEEVERKLKV----LEQELERAEERAEAAESKIKELEEELKS  152 (237)
T ss_dssp             HHHHHHHCHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHhhhchhHHHHHHHHHH
Confidence            99999998554433    3333333333444444444444433333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=97.50  E-value=0.15  Score=58.77  Aligned_cols=181  Identities=21%  Similarity=0.220  Sum_probs=118.5

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHH---HHHhHHHHHH----HH--------HHHHHHHHHHHHHHHHHhh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSE---YLKRYDDAIN----DK--------KKLADDYTSRINNLQGENI  574 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~---~~k~lee~i~----dl--------k~~~e~~~~~~~~l~~k~~  574 (716)
                      ..+...+....+..+.++..++.+......+.+.   +.......|.    ..        .+....+..+...++.+.+
T Consensus       120 ~~e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~  199 (629)
T KOG0963|consen  120 SEENEELKEELEEVNNELADLKTQQVTVRNLKERLRKLEQLLEIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLE  199 (629)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555665655555555444432221   1222222222    22        3344456666788999999


Q ss_pred             hHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          575 SLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKY  654 (716)
Q Consensus       575 ~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY  654 (716)
                      .++.+++++...++.+..+..+.+..|++-..-.-++-.-+...++..++|+-.+|.++..++.|+..+.+...-=  +-
T Consensus       200 ~le~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~--~~  277 (629)
T KOG0963|consen  200 ELEKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLA--KI  277 (629)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhc--cC
Confidence            9999999999999999999999999999998877777788899999999999999999999999999988876511  11


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHH
Q 005055          655 GVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSST  693 (716)
Q Consensus       655 ~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~  693 (716)
                      +. +......|.+.=..--+|..+.+.-+.+++.+..++
T Consensus       278 ~~-i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~  315 (629)
T KOG0963|consen  278 DD-IDALGSVLNQKDSEIAQLSNDIERLEASLVEEREKH  315 (629)
T ss_pred             Cc-hHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11 112222233322222345556666666666555444

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.48  E-value=0.4  Score=56.44  Aligned_cols=119  Identities=18%  Similarity=0.193  Sum_probs=55.8

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSA  643 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~a  643 (716)
                      ...+.....+.+.+..+.++...++.|+..+...|.-.   +..    ...+..+|..++.+...++++++........+
T Consensus       306 ~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~----~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel  381 (569)
T PRK04778        306 KYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELES----VRQLEKQLESLEKQYDEITERIAEQEIAYSEL  381 (569)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHH----HHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence            44445555555555555555555555555555555421   111    12244444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHH
Q 005055          644 QEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEF  690 (716)
Q Consensus       644 k~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~  690 (716)
                      +.+..++..+...+- +.+..+...+...++-..++..+-+.++..+
T Consensus       382 ~e~leel~e~leeie-~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L  427 (569)
T PRK04778        382 QEELEEILKQLEEIE-KEQEKLSEMLQGLRKDELEAREKLERYRNKL  427 (569)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555554 4444444555555554444444444444433

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=97.47  E-value=0.064  Score=68.19  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=18.2

Q ss_pred             EEEeeCCCCCChhHHHHHhh
Q 005055           73 VVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +-+|+||.|||||-++..|.
T Consensus        26 ~t~IvGPNGSGKSNI~DAi~   45 (1163)
T COG1196          26 FTAIVGPNGSGKSNIVDAIR   45 (1163)
T ss_pred             CeEEECCCCCchHHHHHHHH
Confidence            67899999999999999974

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=97.44  E-value=0.25  Score=60.30  Aligned_cols=112  Identities=18%  Similarity=0.266  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhh
Q 005055          550 DAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRS  626 (716)
Q Consensus       550 e~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~  626 (716)
                      +-+..++++++....++..+..+.++.+.+++.+....+.-..|+.+.+......   .++.+......+++|..++.+.
T Consensus       295 ek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~  374 (1074)
T KOG0250|consen  295 EKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEV  374 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334445555555555566666666666666666666666666665555555544   3444444455566666666666


Q ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 005055          627 TAAEARLAAAREQA-LSAQEEVEEWKRKYGVAVREA  661 (716)
Q Consensus       627 ~~~eerl~~~~~ql-~~ak~E~~~w~~kY~~~~~~~  661 (716)
                      ..++.+++.+++++ .....+.++--.||..+-.+.
T Consensus       375 d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~ev  410 (1074)
T KOG0250|consen  375 DRLEKQIADLEKQTNNELGSELEERENKLEQLKKEV  410 (1074)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Confidence            66666666666665 555555555555555555333

>PRK02224 chromosome segregation protein; Provisional

Probab=97.44  E-value=0.25  Score=61.03  Aligned_cols=21  Identities=33%  Similarity=0.501  Sum_probs=18.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +|..|+|+.|+|||+|+..|.
T Consensus        24 g~~~i~G~Ng~GKStil~ai~   44 (880)
T PRK02224         24 GVTVIHGVNGSGKSSLLEACF   44 (880)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            577789999999999999954

>cd01894 EngA1 EngA1 subfamily

Probab=97.42  E-value=0.00037  Score=65.88  Aligned_cols=58  Identities=28%  Similarity=0.438  Sum_probs=40.2

Q ss_pred             EeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           75 SVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        75 sV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +++|..++|||+|+|+|++....+ . +...++|...+.....+     +  .+.+.++||+|++..
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~-~-~~~~~~t~~~~~~~~~~-----~--~~~~~i~DtpG~~~~   58 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAI-V-EDTPGVTRDRIYGEAEW-----G--GREFILIDTGGIEPD   58 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEe-e-cCCCCceeCceeEEEEE-----C--CeEEEEEECCCCCCc
Confidence            479999999999999999875222 2 23345666655544332     2  267899999998643

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.41  E-value=0.00097  Score=71.76  Aligned_cols=74  Identities=19%  Similarity=0.238  Sum_probs=45.2

Q ss_pred             HHHHHhhcc---CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeC
Q 005055           59 EAVAALQLV---KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDS  135 (716)
Q Consensus        59 eAl~~L~~i---~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDT  135 (716)
                      +.+++|..+   +.+-..|.|+|..++|||+|+|.|+|... |.++. ..++|...-+...     ..+|  ..|.++||
T Consensus        23 ~l~~~l~~l~~~~~~~~rIllvGktGVGKSSliNsIlG~~v-~~vs~-f~s~t~~~~~~~~-----~~~G--~~l~VIDT   93 (313)
T TIGR00991        23 KLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSIIGERI-ATVSA-FQSEGLRPMMVSR-----TRAG--FTLNIIDT   93 (313)
T ss_pred             HHHHHHHhcccccccceEEEEECCCCCCHHHHHHHHhCCCc-ccccC-CCCcceeEEEEEE-----EECC--eEEEEEEC
Confidence            344455433   44666789999999999999999999752 21221 1222222111111     1133  57899999


Q ss_pred             CCCccc
Q 005055          136 EGIDAY  141 (716)
Q Consensus       136 EGl~~~  141 (716)
                      +|+++.
T Consensus        94 PGL~d~   99 (313)
T TIGR00991        94 PGLIEG   99 (313)
T ss_pred             CCCCch
Confidence            999754

>PF10220 DUF2146: Uncharacterized conserved protein (DUF2146); InterPro: IPR019354 Smg8 and Smg9 are two subunits of the Smg-1 complex

Probab=97.40  E-value=0.24  Score=60.37  Aligned_cols=77  Identities=23%  Similarity=0.303  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcccCCCCChHHHHHHHHHHHHHHHHHhhhccCCChhhhHHHHHHHHHHHHHHHHHHHHH
Q 005055          349 SVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKN  428 (716)
Q Consensus       349 ~~~e~e~~~a~~~A~~~Y~~~m~~~~p~~e~eL~~~H~~~~~~Al~~F~~~s~g~~~~~~~~~~~L~~~l~~~~e~~~~~  428 (716)
                      .+.+..|.+|+..|.+.|.+.+-..    .  =...|+.-..+|+.+|...+-|  ...+.|..+|++++.+.+..-++.
T Consensus       392 kFs~~~C~~~l~~A~~~Y~~~lP~~----Y--~~~~H~~~l~~A~~~~~~~arG--p~~~~~~~~L~~~C~~~W~~Grq~  463 (895)
T PF10220_consen  392 KFSEHRCEKALPLAKEAYQENLPAH----Y--SSAEHENKLAQALRVFESHARG--PAVEKYLEKLQEECDAIWQSGRQL  463 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcc----c--CHHHHHHHHHHHHHHHHHHccC--chHHHHHHHHHHHHHHHHHHHHhh
Confidence            3567889999999999997654321    1  1367999999999999998887  456789999999888776655554


Q ss_pred             HHHHH
Q 005055          429 VYMEA  433 (716)
Q Consensus       429 n~~~s  433 (716)
                      .+..|
T Consensus       464 CE~~S  468 (895)
T PF10220_consen  464 CEAVS  468 (895)
T ss_pred             hhhhc
Confidence            44333

They suppress Smg-1 kinase activity in the isolated Smg-1 complex, and are involved in nonsense-mediated mRNA decay (NMD) in both mammals and nematodes []. NMD is a surveillance mechanism that detects and degrades mRNAs containing premature translation termination codons.

>PRK11637 AmiB activator; Provisional

Probab=97.40  E-value=0.18  Score=57.12  Aligned_cols=6  Identities=0%  Similarity=-0.119  Sum_probs=2.2

Q ss_pred             HHHhhH
Q 005055          672 QERTSK  677 (716)
Q Consensus       672 ~~~~~e  677 (716)
                      ++++++
T Consensus       245 L~~~I~  250 (428)
T PRK11637        245 LRDSIA  250 (428)
T ss_pred             HHHHHH
Confidence            333333

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.38  E-value=0.036  Score=53.30  Aligned_cols=50  Identities=12%  Similarity=0.276  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          613 DQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAK  662 (716)
Q Consensus       613 ~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~K  662 (716)
                      +.....+.++..++..++.+...++++......+...|-+||+.+-.+-+
T Consensus        90 e~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen   90 EEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            34555556666666777777777777777888888888888887774433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>TIGR00606 rad50 rad50

Probab=97.36  E-value=0.87  Score=58.85  Aligned_cols=16  Identities=6%  Similarity=0.129  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q 005055          549 DDAINDKKKLADDYTS  564 (716)
Q Consensus       549 ee~i~dlk~~~e~~~~  564 (716)
                      ...+.+++++++++..
T Consensus       798 ~~ei~~l~~qie~l~~  813 (1311)
T TIGR00606       798 QMELKDVERKIAQQAA  813 (1311)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444444444333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=97.33  E-value=0.1  Score=54.15  Aligned_cols=139  Identities=18%  Similarity=0.275  Sum_probs=82.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNE--ISDWKRKYDQVLTKQKAMEDQVCSEIEVLKS  624 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e--~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~  624 (716)
                      +.-..+.+++..++++..+++.++....+++++.......+.+.+.+  ...+.+..+.    -+.....+..+|+++..
T Consensus        42 ~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~----ak~r~~~le~el~~l~~  117 (239)
T COG1579          42 ALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQI----AKERINSLEDELAELME  117 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            34445555667777788888888888888888888777777555443  3333333333    23334556666666666


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Q 005055          625 RSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSR  704 (716)
Q Consensus       625 r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~~~~~~  704 (716)
                      +...++..+.++.+.+...+.++.           ..+.+++-+++--++-......+.    +++.+.+..+-.+...|
T Consensus       118 ~~~~l~~~i~~l~~~~~~~e~~~~-----------e~~~~~e~e~~~i~e~~~~~~~~~----~~L~~~l~~ell~~yer  182 (239)
T COG1579         118 EIEKLEKEIEDLKERLERLEKNLA-----------EAEARLEEEVAEIREEGQELSSKR----EELKEKLDPELLSEYER  182 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhcCHHHHHHHHH
Confidence            666666666666666666666666           566666666665555444444433    34444444444443333

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.33  E-value=0.00034  Score=67.64  Aligned_cols=55  Identities=33%  Similarity=0.389  Sum_probs=38.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..|+|+|.+++|||+|+|.|++.. .+.++++  +.|.--|.|.. +      +  ..+.|+||+|+
T Consensus       101 ~~~~~~G~~~~GKstlin~l~~~~-~~~~~~~--~~~t~~~~~~~-~------~--~~~~liDtPG~  155 (155)
T cd01849         101 ITVGVIGYPNVGKSSVINALLNKL-KLKVGNV--PGTTTSQQEVK-L------D--NKIKLLDTPGI  155 (155)
T ss_pred             cEEEEEccCCCCHHHHHHHHHccc-cccccCC--CCcccceEEEE-e------c--CCEEEEECCCC
Confidence            457899999999999999999864 3455544  33333366642 1      1  24889999996

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.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.32  E-value=0.15  Score=51.55  Aligned_cols=164  Identities=15%  Similarity=0.195  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhH
Q 005055          508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTV  587 (716)
Q Consensus       508 ~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~l  587 (716)
                      ....+...++.+++.+..+...|+..+...++-.    ..|++.=++|=..+.....++..|..+.....+++..+...+
T Consensus        16 ~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL----~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~kl   91 (194)
T PF15619_consen   16 ELQNELAELQRKLQELRKENKTLKQLQKRQEKAL----QKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKL   91 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666777777777777777777665544332    345555566666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHH---HHHH-HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Q 005055          588 DSLKNEISDWKRKYD---QVLT-KQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQE----EVEEWKRKYGVAVR  659 (716)
Q Consensus       588 e~~k~e~~e~~r~y~---~~i~-~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~----E~~~w~~kY~~~~~  659 (716)
                      .....++...+...+   .++. ......+.++.++..++.++...+.+++.|+.+++.+..    ++.-+++|+..+..
T Consensus        92 k~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~  171 (194)
T PF15619_consen   92 KDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQE  171 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            655555544444333   3333 234557899999999999999999999999999887654    44555666666663


Q ss_pred             HHHHHHHHHHHHHHHhh
Q 005055          660 EAKAALEKAAIVQERTS  676 (716)
Q Consensus       660 ~~Ka~leq~~~~~~~~~  676 (716)
                       .-..+..+|..+...+
T Consensus       172 -~~~~l~~ei~~L~~kl  187 (194)
T PF15619_consen  172 -EVKSLQEEIQRLNQKL  187 (194)
T ss_pred             -HHHHHHHHHHHHHHHH
Confidence             2333334444444333

>cd01878 HflX HflX subfamily

Probab=97.31  E-value=0.00066  Score=68.23  Aligned_cols=59  Identities=32%  Similarity=0.441  Sum_probs=40.0

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccc----cCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA----STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g----~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +.++..|+|+|+.++|||+|+|.|++..  |.+.    +|..+.+.++.     +    ++  ...+.++||.|+.
T Consensus        38 ~~~~~~I~iiG~~g~GKStLl~~l~~~~--~~~~~~~~~t~~~~~~~~~-----~----~~--~~~~~i~Dt~G~~  100 (204)
T cd01878          38 RSGIPTVALVGYTNAGKSTLFNALTGAD--VYAEDQLFATLDPTTRRLR-----L----PD--GREVLLTDTVGFI  100 (204)
T ss_pred             hcCCCeEEEECCCCCCHHHHHHHHhcch--hccCCccceeccceeEEEE-----e----cC--CceEEEeCCCccc
Confidence            4678899999999999999999999864  3222    23333332222     1    11  1368899999984

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.

>cd01850 CDC_Septin CDC/Septin

Probab=97.30  E-value=0.00038  Score=74.14  Aligned_cols=63  Identities=22%  Similarity=0.311  Sum_probs=45.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccC-------CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAST-------HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~-------~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|.|+|..++|||+|+|.|++..  |.....       ..++|.++-.....+.   .+|..+.+.++||+|+++
T Consensus         6 ~I~vvG~sg~GKSTliN~L~~~~--~~~~~~~~~~~~~~~~~T~~i~~~~~~i~---~~g~~~~l~iiDTpGfgd   75 (276)
T cd01850           6 NIMVVGESGLGKSTFINTLFNTK--LIPSDYPPDPAEEHIDKTVEIKSSKAEIE---ENGVKLKLTVIDTPGFGD   75 (276)
T ss_pred             EEEEEcCCCCCHHHHHHHHHcCC--CccccCCCCccccccCCceEEEEEEEEEE---ECCEEEEEEEEecCCccc
Confidence            58899999999999999999875  322211       2356767766554442   246567899999999974

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.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=97.29  E-value=0.037  Score=56.27  Aligned_cols=106  Identities=16%  Similarity=0.285  Sum_probs=60.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH---HHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLR---EKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLK  623 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le---~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~  623 (716)
                      ++.+|+..++++.+.+..+...++..+.+|.   .++..+.++|..++.+-..+..+|..+-.+.....+.+...|-+.+
T Consensus        59 ~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evq  138 (201)
T PF13851_consen   59 RLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQ  138 (201)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555544444332   3444445555555555555555555555444444555555555555


Q ss_pred             hh----hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          624 SR----STAAEARLAAAREQALSAQEEVEEWKR  652 (716)
Q Consensus       624 ~r----~~~~eerl~~~~~ql~~ak~E~~~w~~  652 (716)
                      .+    .--+|-++.++.++++....+..+|..
T Consensus       139 Qk~~~kn~lLEkKl~~l~~~lE~keaqL~evl~  171 (201)
T PF13851_consen  139 QKTGLKNLLLEKKLQALSEQLEKKEAQLNEVLA  171 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43    456777888888888877777776654

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=97.27  E-value=0.15  Score=56.76  Aligned_cols=166  Identities=15%  Similarity=0.223  Sum_probs=113.1

Q ss_pred             HHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHH
Q 005055          518 LKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDW  597 (716)
Q Consensus       518 ~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~  597 (716)
                      .++..++..--.|++++++++-. ...+.-+=+.|+.|++.+|++...+-....+...++-.++.|.+-|..++++..|-
T Consensus       331 ~~IqdLq~sN~yLe~kvkeLQ~k-~~kQqvfvDiinkLk~niEeLIedKY~viLEKnd~~k~lqnLqe~la~tqk~LqEs  409 (527)
T PF15066_consen  331 NRIQDLQCSNLYLEKKVKELQMK-ITKQQVFVDIINKLKENIEELIEDKYRVILEKNDIEKTLQNLQEALANTQKHLQES  409 (527)
T ss_pred             HHHHHhhhccHHHHHHHHHHHHH-hhhhhHHHHHHHHHHHHHHHHHHhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555666666665533 33445678999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHH----HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH
Q 005055          598 KRKYDQVLTKQKAMEDQVC----SEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAA-IVQ  672 (716)
Q Consensus       598 ~r~y~~~i~~~k~~~~~~~----~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~-~~~  672 (716)
                      +..=+.+.-+.|+.+..|.    .-+++++.|-... .+|.++.+.|-...+|+++..        ..|-.||++. +..
T Consensus       410 r~eKetLqlelkK~k~nyv~LQEry~~eiQqKnksv-sqclEmdk~LskKeeeverLQ--------~lkgelEkat~SAL  480 (527)
T PF15066_consen  410 RNEKETLQLELKKIKANYVHLQERYMTEIQQKNKSV-SQCLEMDKTLSKKEEEVERLQ--------QLKGELEKATTSAL  480 (527)
T ss_pred             HhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhHH-HHHHHHHHHhhhhHHHHHHHH--------HHHHHHHHHHHHHH
Confidence            9888888777777665553    2344444443222 367777777777777777433        3344455544 444


Q ss_pred             HHhhHHHHhhHH---HHHHHHHHH
Q 005055          673 ERTSKEMQQRED---VLREEFSST  693 (716)
Q Consensus       673 ~~~~e~~q~~e~---~~~~~~~~~  693 (716)
                      ..|-++...||-   .|++||..+
T Consensus       481 dlLkrEKe~~EqefLslqeEfQk~  504 (527)
T PF15066_consen  481 DLLKREKETREQEFLSLQEEFQKH  504 (527)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            544444444444   355666554

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=97.24  E-value=0.0013  Score=63.43  Aligned_cols=57  Identities=23%  Similarity=0.265  Sum_probs=40.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|.|+|..++|||+|+|+|.+..  |.+++. ...|+++-.+....       ..+.+.++||+|..
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~--~~~~~~-~~~t~~~~~~~~~~-------~~~~~~i~Dt~G~~   58 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAK--PEVAPY-PFTTKSLFVGHFDY-------KYLRWQVIDTPGLL   58 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCC--CccCCC-CCcccceeEEEEcc-------CceEEEEEECCCcC
Confidence            47899999999999999999876  443321 12355655444321       23679999999984

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.

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.22  E-value=0.62  Score=53.71  Aligned_cols=33  Identities=30%  Similarity=0.354  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 005055          614 QVCSEIEVLKSRSTAAEARLAAAREQALSAQEE  646 (716)
Q Consensus       614 ~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E  646 (716)
                      .++.++..|+..+..+++++.+.+.+....+.|
T Consensus       280 ~~~~e~e~LkeqLr~~qe~lqaSqq~~~~L~~E  312 (546)
T PF07888_consen  280 QLQQENEALKEQLRSAQEQLQASQQEAELLRKE  312 (546)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555444444433

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=97.21  E-value=1.3  Score=57.44  Aligned_cols=79  Identities=22%  Similarity=0.289  Sum_probs=63.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQK----AMEDQVCSEIEVL  622 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k----~~~~~~~~~i~~l  622 (716)
                      +..+-|.+|+.+++.....+..|+.....+..+++.....+..++.+...|++||++++..++    ..-.++.+.|..|
T Consensus      1240 ~~~~k~qEl~~~i~kl~~el~plq~~l~el~~e~~~~~ael~~l~~e~~~wK~R~q~L~~k~k~~d~~~~~kL~~ei~~L 1319 (1822)
T KOG4674|consen 1240 ANLEKIQELRDKIEKLNFELAPLQNELKELKAELQEKVAELKKLEEENDRWKQRNQDLLEKYKDSDKNDYEKLKSEISRL 1319 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHH
Confidence            566778888999999999999999999999999999999999999999999999999977632    2223444444444


Q ss_pred             Hhh
Q 005055          623 KSR  625 (716)
Q Consensus       623 ~~r  625 (716)
                      +..
T Consensus      1320 k~e 1322 (1822)
T KOG4674|consen 1320 KEE 1322 (1822)
T ss_pred             HHH
Confidence            443

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=97.21  E-value=0.0007  Score=65.01  Aligned_cols=60  Identities=18%  Similarity=0.227  Sum_probs=44.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |+|+|+.++|||+|+|+|.+...-|.   .....|.|+..+...++.  .++..+.+.++||.|.
T Consensus         3 i~vvG~~~~GKtsl~~~l~~~~~~~~---~~~~~t~~~~~~~~~~~~--~~~~~~~l~i~Dt~G~   62 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHSNGAVFP---KNYLMTTGCDFVVKEVPV--DTDNTVELFIFDSAGQ   62 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCcC---ccCCCceEEEEEEEEEEe--CCCCEEEEEEEECCCH
Confidence            78999999999999999986533352   334567888776554432  2456689999999994

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.

>cd04171 SelB SelB subfamily

Probab=97.21  E-value=0.0013  Score=62.73  Aligned_cols=23  Identities=22%  Similarity=0.534  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+|+|.+++|||+|+|+|.|..
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~   24 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIE   24 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcc
Confidence            79999999999999999999864

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

>cd01898 Obg Obg subfamily

Probab=97.20  E-value=0.0014  Score=63.17  Aligned_cols=54  Identities=22%  Similarity=0.287  Sum_probs=35.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|..++|||+|+|.|.|...  .++.   +....+.|.-.+         ++ ...+.|+||+|+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~~~--~v~~~~~~t~~~~~~~~~~---------~~-~~~~~l~DtpG~~   59 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNAKP--KIADYPFTTLVPNLGVVRV---------DD-GRSFVVADIPGLI   59 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcCCc--cccCCCccccCCcceEEEc---------CC-CCeEEEEecCccc
Confidence            78999999999999999998652  2221   111223344322         11 1368899999984

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.

>PRK02224 chromosome segregation protein; Provisional

Probab=97.20  E-value=0.2  Score=61.86  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=13.2

Q ss_pred             HHHHHHHhhHHHHhhHHHHHHH
Q 005055          668 AAIVQERTSKEMQQREDVLREE  689 (716)
Q Consensus       668 ~~~~~~~~~e~~q~~e~~~~~~  689 (716)
                      .+..|+..+++.+.+-+.++.+
T Consensus       406 ~~~~~e~~l~~l~~~~~~l~~~  427 (880)
T PRK02224        406 DLGNAEDFLEELREERDELRER  427 (880)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHH
Confidence            4455666666666666666544

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=97.19  E-value=0.065  Score=59.91  Aligned_cols=127  Identities=9%  Similarity=0.092  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHH
Q 005055          554 DKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAE  630 (716)
Q Consensus       554 dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~e  630 (716)
                      .+....+.+.+++..++.+...++.++..+..+++.++.+....++.|...   +++.-    ..+.+..+.+.....++
T Consensus       134 ~~~~~~~~~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~~~L~~~g~----is~~~~~~~~~~~~~~~  209 (423)
T TIGR01843       134 LFESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELEARRKLKEKGL----VSRLELLELERERAEAQ  209 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHHH
Confidence            334444445555555555555555555555555555555555555544443   22100    00112223333344444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHH
Q 005055          631 ARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQRED  684 (716)
Q Consensus       631 erl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~  684 (716)
                      ..+.+++.++..++.+...-+..+..+.+.........+...+.-+.+++.+-+
T Consensus       210 ~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~  263 (423)
T TIGR01843       210 GELGRLEAELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLN  263 (423)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555444444444444444444334444444444443333

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=97.19  E-value=0.0006  Score=72.10  Aligned_cols=64  Identities=23%  Similarity=0.297  Sum_probs=46.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +.+.=|+|+|++..|||+|-|++.|+. -|++...+..+|.-|---+.     .  | +..++|+||+|+-+.
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~k-v~~vS~K~~TTr~~ilgi~t-----s--~-eTQlvf~DTPGlvs~  133 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQK-VSAVSRKVHTTRHRILGIIT-----S--G-ETQLVFYDTPGLVSK  133 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCc-cccccccccceeeeeeEEEe-----c--C-ceEEEEecCCccccc
Confidence            467779999999999999999999985 47777666555544332211     1  2 367999999998543

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.17  E-value=0.00059  Score=67.61  Aligned_cols=55  Identities=35%  Similarity=0.334  Sum_probs=40.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..|+|+|.+++|||+|+|.|+|.. .+.+++. -.+|++ |-|.. +      +  ..+.|+||+|+
T Consensus       118 ~~~~~vG~pnvGKSslin~l~~~~-~~~~~~~-pg~T~~-~~~~~-~------~--~~~~l~DtPGi  172 (172)
T cd04178         118 ITVGVVGFPNVGKSSLINSLKRSR-ACNVGAT-PGVTKS-MQEVH-L------D--KKVKLLDSPGI  172 (172)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCcc-cceecCC-CCeEcc-eEEEE-e------C--CCEEEEECcCC
Confidence            468999999999999999999874 4666654 346776 44532 1      1  24789999995

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=97.17  E-value=0.00076  Score=62.82  Aligned_cols=57  Identities=32%  Similarity=0.461  Sum_probs=40.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |+|+|..++|||+|+|+|++..  |..... ...|..+|......     ++..+.+.++||+|.
T Consensus         4 i~~~G~~~~GKstl~~~l~~~~--~~~~~~-~~~~~~~~~~~~~~-----~~~~~~~~~~D~~G~   60 (161)
T TIGR00231         4 IVIVGDPNVGKSTLLNRLLGNK--FITEYK-PGTTRNYVTTVIEE-----DGKTYKFNLLDTAGQ   60 (161)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--CcCcCC-CCceeeeeEEEEEE-----CCEEEEEEEEECCCc
Confidence            7899999999999999999876  544432 34455555543322     233467899999995

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.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=97.16  E-value=0.32  Score=49.48  Aligned_cols=143  Identities=13%  Similarity=0.227  Sum_probs=78.7

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005055          545 LKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKS  624 (716)
Q Consensus       545 ~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~  624 (716)
                      .+++.+.|.++++.-+........+..+..       .+.+-|..++.+..++++.....-.++ ..-..+.+++..++.
T Consensus        29 IksLKeei~emkk~e~~~~k~m~ei~~eN~-------~L~epL~~a~~e~~eL~k~L~~y~kdK-~~L~~~k~rl~~~ek  100 (201)
T PF13851_consen   29 IKSLKEEIAEMKKKEERNEKLMAEISQENK-------RLSEPLKKAEEEVEELRKQLKNYEKDK-QSLQNLKARLKELEK  100 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            345555555555555554444444444444       444455555555555555544432222 112234445555555


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHH
Q 005055          625 RSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLA  695 (716)
Q Consensus       625 r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~  695 (716)
                      .+..++-....++........|-.+|.+++..++.++.-..+-.+-..++=+...+..-+.-.+++...|+
T Consensus       101 ~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~evl~  171 (201)
T PF13851_consen  101 ELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNEVLA  171 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555566666668888888888887776666666666666555555555555555554443

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.16  E-value=0.64  Score=56.27  Aligned_cols=67  Identities=21%  Similarity=0.309  Sum_probs=36.0

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      ..|+.++..++..++++..+|.+.+..++.++.....+   +.+....-..++.++++.+.+......++
T Consensus       818 e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i  887 (1174)
T KOG0933|consen  818 ERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEI  887 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHH
Confidence            44555555566666666666666666666655555555   33333333445555555555544444444

>PRK03918 chromosome segregation protein; Provisional

Probab=97.15  E-value=0.4  Score=59.18  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=18.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +|.+|+|+.|+|||+|+..|.
T Consensus        24 g~~~i~G~nG~GKStil~ai~   44 (880)
T PRK03918         24 GINLIIGQNGSGKSSILEAIL   44 (880)
T ss_pred             CcEEEEcCCCCCHHHHHHHHH
Confidence            356799999999999999863

>cd00880 Era_like Era (E

Probab=97.15  E-value=0.0015  Score=60.74  Aligned_cols=59  Identities=32%  Similarity=0.428  Sum_probs=36.3

Q ss_pred             eeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           76 VCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        76 V~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      |+|+.++|||+|+|.|++..  +.......++|...-.....+      +....+.++||+|+....
T Consensus         1 i~G~~gsGKstl~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~Dt~g~~~~~   59 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQE--VAIVSPVPGTTTDPVEYVWEL------GPLGPVVLIDTPGIDEAG   59 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCcc--ccccCCCCCcEECCeEEEEEe------cCCCcEEEEECCCCCccc
Confidence            68999999999999999874  221122223333332222111      113578999999986544

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

>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=97.13  E-value=0.00029  Score=68.92  Aligned_cols=71  Identities=21%  Similarity=0.300  Sum_probs=39.3

Q ss_pred             HHHHHHhhc-cCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccc-------cCCCcccceEEeeccccccccCCCCcee
Q 005055           58 PEAVAALQL-VKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA-------STHRPCTKGLWLWSAPLKRTALDGTEYN  129 (716)
Q Consensus        58 ~eAl~~L~~-i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g-------~~~~~~TkGIWmw~~p~~~~~~~g~~~~  129 (716)
                      .+.++.|.. +.+  -++.++|+.+.|||+|+|.|++.. -+.++       .+...+|..-++.-       |+|    
T Consensus        23 ~~g~~~l~~~l~~--k~~vl~G~SGvGKSSLiN~L~~~~-~~~t~~is~~~~rGkHTTt~~~l~~l-------~~g----   88 (161)
T PF03193_consen   23 GEGIEELKELLKG--KTSVLLGQSGVGKSSLINALLPEA-KQKTGEISEKTGRGKHTTTHRELFPL-------PDG----   88 (161)
T ss_dssp             TTTHHHHHHHHTT--SEEEEECSTTSSHHHHHHHHHTSS-----S--------------SEEEEEE-------TTS----
T ss_pred             CcCHHHHHHHhcC--CEEEEECCCCCCHHHHHHHHHhhc-chhhhhhhcccCCCcccCCCeeEEec-------CCC----
Confidence            344455543 344  467889999999999999999863 12222       22223334443321       222    


Q ss_pred             EEEEeCCCCcccc
Q 005055          130 LLLLDSEGIDAYD  142 (716)
Q Consensus       130 vvlLDTEGl~~~~  142 (716)
                      .+++||+|+.+++
T Consensus        89 ~~iIDTPGf~~~~  101 (161)
T PF03193_consen   89 GYIIDTPGFRSFG  101 (161)
T ss_dssp             EEEECSHHHHT--
T ss_pred             cEEEECCCCCccc
Confidence            5789999986443

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=97.09  E-value=0.0017  Score=61.22  Aligned_cols=60  Identities=27%  Similarity=0.413  Sum_probs=36.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      -|+++|+.++|||+|+|+|.+..  +..-....++|.-+.  ...+.   .+  ...+.++||+|++..
T Consensus         3 ~i~l~G~~~~GKstli~~l~~~~--~~~~~~~~~~~~~~~--~~~~~---~~--~~~~~i~DtpG~~~~   62 (157)
T cd04164           3 KVVIVGKPNVGKSSLLNALAGRD--RAIVSDIAGTTRDVI--EESID---IG--GIPVRLIDTAGIRET   62 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc--eEeccCCCCCccceE--EEEEE---eC--CEEEEEEECCCcCCC
Confidence            47899999999999999999875  222111222232111  11111   11  246889999998543

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.

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=97.08  E-value=0.12  Score=59.62  Aligned_cols=136  Identities=13%  Similarity=0.202  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH---------------hhHHhHHHHHHHHHHHHHHHHHH---HHHHHHH
Q 005055          550 DAINDKKKLADDYTSRINNLQGENISLREKSS---------------SLSKTVDSLKNEISDWKRKYDQV---LTKQKAM  611 (716)
Q Consensus       550 e~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~---------------~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~  611 (716)
                      +.+.++..+..+...++...+.+...++.+..               .+..++..++.+..++..+|-.-   +.+.++.
T Consensus       204 ~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~q  283 (498)
T TIGR03007       204 SEISEAQEELEAARLELNEAIAQRDALKRQLGGEEPVLLAGSSVANSELDGRIEALEKQLDALRLRYTDKHPDVIATKRE  283 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcCcccccCCCchHHHHHHHHHHHHHHHHHhcccChHHHHHHHH
Confidence            44444455555555555555555555444332               44455666666666666666544   3333333


Q ss_pred             HHHHHHHHHH---------------------HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHH
Q 005055          612 EDQVCSEIEV---------------------LKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVR--EAKAALEKA  668 (716)
Q Consensus       612 ~~~~~~~i~~---------------------l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~--~~Ka~leq~  668 (716)
                      .+.++.++..                     +......++.++++++.++...+.+.++++.++..+-.  ..=..|+++
T Consensus       284 i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~el~~L~Re  363 (498)
T TIGR03007       284 IAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLEARVAELTARIERLESLLRTIPEVEAELTQLNRD  363 (498)
T ss_pred             HHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHH
Confidence            3333333322                     33344455555555555555555556655555544331  111244455


Q ss_pred             HHHHHHhhHHHHhhHHH
Q 005055          669 AIVQERTSKEMQQREDV  685 (716)
Q Consensus       669 ~~~~~~~~e~~q~~e~~  685 (716)
                      ....+...+.+..|-++
T Consensus       364 ~~~~~~~Y~~l~~r~ee  380 (498)
T TIGR03007       364 YEVNKSNYEQLLTRRES  380 (498)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            54444444444444443

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PRK15494 era GTPase Era; Provisional

Probab=97.07  E-value=0.00091  Score=73.35  Aligned_cols=58  Identities=24%  Similarity=0.450  Sum_probs=40.3

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcccc-ccCCC---cccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQV-ASTHR---PCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~-g~~~~---~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|+|+|..++|||+|+|+|+|..  |.. .+..+   ....|++.|.         +  ..++|+||+|+.
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k--~~ivs~k~~tTr~~~~~~~~~~---------~--~qi~~~DTpG~~  111 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEK--LSIVTPKVQTTRSIITGIITLK---------D--TQVILYDTPGIF  111 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCc--eeeccCCCCCccCcEEEEEEeC---------C--eEEEEEECCCcC
Confidence            355679999999999999999999876  432 22221   1223555541         2  468999999974

>cd04142 RRP22 RRP22 subfamily

Probab=97.05  E-value=0.0024  Score=64.55  Aligned_cols=59  Identities=31%  Similarity=0.494  Sum_probs=38.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|..++|||.|+|++++..  |.-.  ..| |.|.-.....+   ..+|..+.+.++||.|+..
T Consensus         3 I~ivG~~~vGKTsLi~~~~~~~--f~~~--~~p-t~~~~~~~~~i---~~~~~~~~l~i~Dt~G~~~   61 (198)
T cd04142           3 VAVLGAPGVGKTAIVRQFLAQE--FPEE--YIP-TEHRRLYRPAV---VLSGRVYDLHILDVPNMQR   61 (198)
T ss_pred             EEEECCCCCcHHHHHHHHHcCC--CCcc--cCC-ccccccceeEE---EECCEEEEEEEEeCCCccc
Confidence            7899999999999999999865  5322  122 22322211111   1245667899999999854

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.

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=97.04  E-value=1.2  Score=57.10  Aligned_cols=19  Identities=26%  Similarity=0.581  Sum_probs=16.6

Q ss_pred             EEeeCCCCCChhHHHHHhh
Q 005055           74 VSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~ll   92 (716)
                      |-|+|-.|+||||||..|.
T Consensus        20 t~i~GTNG~GKTTlLRlip   38 (1201)
T PF12128_consen   20 THICGTNGVGKTTLLRLIP   38 (1201)
T ss_pred             eeeecCCCCcHHHHHHHHH
Confidence            4578999999999999975

>cd01890 LepA LepA subfamily

Probab=97.04  E-value=0.0022  Score=62.62  Aligned_cols=98  Identities=20%  Similarity=0.313  Sum_probs=50.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccc-------cCC-CcccceEEeecccccc--ccCCCCceeEEEEeCCCCccccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVA-------STH-RPCTKGLWLWSAPLKR--TALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g-------~~~-~~~TkGIWmw~~p~~~--~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      |+++|..++|||+|+|+|++....|.-+       ++. ...+.|+=........  ...++..+.+.|+||.|...+. 
T Consensus         3 i~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-   81 (179)
T cd01890           3 FSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS-   81 (179)
T ss_pred             EEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH-
Confidence            7999999999999999999753222110       000 0012233222111100  0003456889999999975321 


Q ss_pred             CCcchhHHHHHhhhccceEEEccCCCCchHhhh
Q 005055          144 TGTYSTQIFSLAVLLSSMFIYNQMGGIDESAID  176 (716)
Q Consensus       144 ~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~  176 (716)
                          ..+.-++...=.-++||.....+...++.
T Consensus        82 ----~~~~~~~~~ad~~i~v~D~~~~~~~~~~~  110 (179)
T cd01890          82 ----YEVSRSLAACEGALLLVDATQGVEAQTLA  110 (179)
T ss_pred             ----HHHHHHHHhcCeEEEEEECCCCccHhhHH
Confidence                22222222212235677766554444443

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.

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=97.04  E-value=1.1  Score=52.65  Aligned_cols=121  Identities=16%  Similarity=0.252  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhH---HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTV---DSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEV  621 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~l---e~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~  621 (716)
                      .++++..+...++++..++..|..+...+...+......+   ...++++....++|+..   +.+....-..+...+.+
T Consensus       304 V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~  383 (560)
T PF06160_consen  304 VEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEE  383 (560)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHH
Confidence            3344444444555555555555555555555554444333   23344455555566555   44444444555556666


Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 005055          622 LKSRSTAAEARLAAAREQALSAQE---EVEEWKRKYGVAVREAKAALEKA  668 (716)
Q Consensus       622 l~~r~~~~eerl~~~~~ql~~ak~---E~~~w~~kY~~~~~~~Ka~leq~  668 (716)
                      +..++..+++...++.+.++..+.   ++.+-..+|+..++++|-.+++.
T Consensus       384 ~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR~lek~  433 (560)
T PF06160_consen  384 IEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLREIKRRLEKS  433 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            666666666555555555444332   33344446666666666666554

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=97.03  E-value=0.051  Score=64.85  Aligned_cols=95  Identities=15%  Similarity=0.235  Sum_probs=52.1

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 005055          522 SIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY  601 (716)
Q Consensus       522 s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y  601 (716)
                      .+|.+++.|+-.+...-+.    +..|...|..+..---.++.++.+++.++..|+.++..|......=|+.+..++|++
T Consensus       422 rLE~dvkkLraeLq~~Rq~----E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL  497 (697)
T PF09726_consen  422 RLEADVKKLRAELQSSRQS----EQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRL  497 (697)
T ss_pred             HHHHHHHHHHHHHHhhhhh----HHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555554444333332    333444555443333456666667777777777777777777777777777777776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 005055          602 DQVLTKQKAMEDQVCSEIEVLKS  624 (716)
Q Consensus       602 ~~~i~~~k~~~~~~~~~i~~l~~  624 (716)
                      .+.-.    ....+++++.+-+.
T Consensus       498 ~eE~~----~R~~lEkQL~eErk  516 (697)
T PF09726_consen  498 AEERR----QRASLEKQLQEERK  516 (697)
T ss_pred             HHHHH----HHHHHHHHHHHHHH
Confidence            55322    23344444444443

; GO: 0016021 integral to membrane

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.01  E-value=0.0011  Score=63.04  Aligned_cols=55  Identities=27%  Similarity=0.359  Sum_probs=36.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|.++|..++|||+|+|.|+|... ..++... .+|+... | .++     ++   .+.++||+|+.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~-~~~~~~~-~~~~~~~-~-~~~-----~~---~~~i~DtpG~~  139 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKK-VSVSATP-GKTKHFQ-T-IFL-----TP---TITLCDCPGLV  139 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc-eeeCCCC-CcccceE-E-EEe-----CC---CEEEEECCCcC
Confidence            578899999999999999998752 2333322 2344432 2 111     11   47899999974

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=97.01  E-value=0.001  Score=74.23  Aligned_cols=57  Identities=23%  Similarity=0.269  Sum_probs=41.6

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ++=|+|+|.+.+|||||||.|.+...  .+++   |+.....|++.+.        +  ...++|+||+|+.
T Consensus       159 iadValVG~PNaGKSTLln~Lt~~k~--~vs~~p~TT~~p~~Giv~~~--------~--~~~i~~vDtPGi~  218 (390)
T PRK12298        159 LADVGLLGLPNAGKSTFIRAVSAAKP--KVADYPFTTLVPNLGVVRVD--------D--ERSFVVADIPGLI  218 (390)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhCCcc--cccCCCCCccCcEEEEEEeC--------C--CcEEEEEeCCCcc
Confidence            55699999999999999999998652  3332   3334467877652        1  1358999999984

>PRK09039 hypothetical protein; Validated

Probab=97.01  E-value=0.097  Score=57.60  Aligned_cols=85  Identities=16%  Similarity=0.187  Sum_probs=51.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          545 LKRYDDAINDKKKLADDYTSRINNLQGENI-------SLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCS  617 (716)
Q Consensus       545 ~k~lee~i~dlk~~~e~~~~~~~~l~~k~~-------~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~  617 (716)
                      ..+++..|.+++..++....+.+.|+....       .++.+...+..+|...+.+.++-.+....           |+.
T Consensus        76 ~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~~~~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~-----------L~~  144 (343)
T PRK09039         76 NQDLQDSVANLRASLSAAEAERSRLQALLAELAGAGAAAEGRAGELAQELDSEKQVSARALAQVEL-----------LNQ  144 (343)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHH-----------HHH
Confidence            456777777777777777777766666433       55666666666666666655555554443           555


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHH
Q 005055          618 EIEVLKSRSTAAEARLAAAREQA  640 (716)
Q Consensus       618 ~i~~l~~r~~~~eerl~~~~~ql  640 (716)
                      +|+.|+.++..+++.|.+++++.
T Consensus       145 qI~aLr~Qla~le~~L~~ae~~~  167 (343)
T PRK09039        145 QIAALRRQLAALEAALDASEKRD  167 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            56655555555555555555554

>PRK09039 hypothetical protein; Validated

Probab=97.00  E-value=0.32  Score=53.54  Aligned_cols=41  Identities=17%  Similarity=0.254  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          608 QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       608 ~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      .+....+...++.-|++.+..++++|++++.+++.++..-.
T Consensus       128 ~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~  168 (343)
T PRK09039        128 EKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDR  168 (343)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444443

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=96.98  E-value=0.002  Score=64.93  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=20.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |+|+|..++|||+|+|.|+|..
T Consensus         4 I~i~G~~g~GKSSLin~L~g~~   25 (197)
T cd04104           4 IAVTGESGAGKSSFINALRGVG   25 (197)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            7899999999999999999853

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

>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=96.96  E-value=0.004  Score=56.58  Aligned_cols=90  Identities=21%  Similarity=0.319  Sum_probs=50.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCc-cccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHH
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSG-FQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIF  152 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~g-F~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IF  152 (716)
                      |.|+|+.++|||+|+++|++.... -.......+.|-++......       +....+.+.|+.|......    ....|
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~d~~g~~~~~~----~~~~~   70 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVD-------GDRQSLQFWDFGGQEEFYS----QHQFF   70 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEET-------TEEEEEEEEEESSSHCHHC----TSHHH
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEec-------CCceEEEEEecCccceecc----cccch
Confidence            679999999999999999987622 11333444455554444322       2234588899998632211    11122


Q ss_pred             HHhhhccceEEEccCCCCchHhhhhh
Q 005055          153 SLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       153 aLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                       +.---.=++||++.   +..+++++
T Consensus        71 -~~~~d~~ilv~D~s---~~~s~~~~   92 (119)
T PF08477_consen   71 -LKKADAVILVYDLS---DPESLEYL   92 (119)
T ss_dssp             -HHHSCEEEEEEECC---GHHHHHHH
T ss_pred             -hhcCcEEEEEEcCC---ChHHHHHH
Confidence             33333446778665   44556554

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=96.96  E-value=0.0014  Score=65.03  Aligned_cols=59  Identities=24%  Similarity=0.271  Sum_probs=39.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+.-|+|+|..++|||+|+|.|++...-..+.++ -.+|..+=.+..          ...+.|+||+|++
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~-~~~t~~~~~~~~----------~~~l~l~DtpG~~   81 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNRKNLARTSKT-PGRTQLINFFEV----------NDKLRLVDLPGYG   81 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCC-CCceeEEEEEec----------CCeEEEeCCCCCC
Confidence            4455899999999999999999986411122222 245665533321          1468999999975

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=96.96  E-value=0.66  Score=55.44  Aligned_cols=124  Identities=17%  Similarity=0.169  Sum_probs=69.2

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEE  646 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E  646 (716)
                      ...+.+..-.+.++..+.+.+....++-.++.++|.+...+           +...+.-....++....+..++..++.+
T Consensus       413 ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~di~kQ-----------le~~~~s~~~~~~~~~~L~d~le~~~~~  481 (980)
T KOG0980|consen  413 EEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDIQKQ-----------LESAEQSIDDVEEENTNLNDQLEELQRA  481 (980)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555555566666666666666666666666654332           1111112225566666666666667777


Q ss_pred             HHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHHHH
Q 005055          647 VEEWKRKYGVAV------REAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSY  701 (716)
Q Consensus       647 ~~~w~~kY~~~~------~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~~~  701 (716)
                      ...|..||+...      ....+.+..+++...+.+.-.-......-+++...+.+||...
T Consensus       482 ~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq~~~~~~~qs~~~~~~~l~~~l~~KD~~~  542 (980)
T KOG0980|consen  482 AGRAETKTESQAKALESLRQELALLLIELEELQRTLSNLAQSHNNQLAQLEDLLKQKDRLA  542 (980)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Confidence            777777776543      1333444444444444444445555666667777777776543

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.95  E-value=1.4  Score=52.37  Aligned_cols=149  Identities=13%  Similarity=0.160  Sum_probs=74.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED---QVCSEIEVLK  623 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~---~~~~~i~~l~  623 (716)
                      +.++++.++.++..+...+..+++.+.+.+++..+.+....++.-........-=.-+-+..+..+.   .|+.++....
T Consensus       789 ~~qeqv~El~~~l~e~~~~l~~~q~e~~~~keq~~t~~~~tsa~a~~le~m~~~~~~la~e~~~ieq~ls~l~~~~k~~~  868 (970)
T KOG0946|consen  789 GDQEQVIELLKNLSEESTRLQELQSELTQLKEQIQTLLERTSAAADSLESMGSTEKNLANELKLIEQKLSNLQEKIKFGN  868 (970)
T ss_pred             hhHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhccccchhhHHHHHHHHHHHHHHHhhhhh
Confidence            3445555554445555555666666666666666655554444433333322211111111111111   1222233333


Q ss_pred             hhhHHHHHHHHHHHHHHHHH---------HH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHH
Q 005055          624 SRSTAAEARLAAAREQALSA---------QE-----EVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREE  689 (716)
Q Consensus       624 ~r~~~~eerl~~~~~ql~~a---------k~-----E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~  689 (716)
                      +-...+-|.++++++|+++-         |.     |+..-+++-+.++ =-.+..++.|..|++++++...+-.+...|
T Consensus       869 nli~~ltEk~~sl~~qadse~l~ka~~~~k~~nl~lki~s~kqeqee~~-v~~~~~~~~i~alk~~l~dL~q~~eeie~e  947 (970)
T KOG0946|consen  869 NLIKELTEKISSLEAQADSETLSKALKTVKSENLSLKIVSNKQEQEELL-VLLADQKEKIQALKEALEDLNQPVEEIEDE  947 (970)
T ss_pred             hHHHHHhhhhhhHHHhhcchHHHHHHHHhhcccchhcccchhhhHHHHH-HHHhhHHHHHHHHHHHHHHhCCChhhHHhh
Confidence            33344444555555444332         22     3333444444444 356888999999999999999887666555


Q ss_pred             HHHHHHH
Q 005055          690 FSSTLAE  696 (716)
Q Consensus       690 ~~~~~~~  696 (716)
                      .-+...+
T Consensus       948 ~~s~~~e  954 (970)
T KOG0946|consen  948 KVSIIGE  954 (970)
T ss_pred             hhcccch
Confidence            5444433

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=96.95  E-value=0.054  Score=57.66  Aligned_cols=94  Identities=15%  Similarity=0.169  Sum_probs=84.2

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          543 EYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVL  622 (716)
Q Consensus       543 ~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l  622 (716)
                      .-.+.+|+.|.+++++-.++..+...+..+|.+.+++.++|..+|..+-.-.+++.-.|+..+..+..+-+.=+..|..|
T Consensus       127 ~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~L  206 (401)
T PF06785_consen  127 GDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKL  206 (401)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHH
Confidence            33457999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhHHHHHHHHHH
Q 005055          623 KSRSTAAEARLAAA  636 (716)
Q Consensus       623 ~~r~~~~eerl~~~  636 (716)
                      ++|+.++--.+..+
T Consensus       207 EsKVqDLm~EirnL  220 (401)
T PF06785_consen  207 ESKVQDLMYEIRNL  220 (401)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988865554443

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=96.95  E-value=1.8  Score=53.47  Aligned_cols=119  Identities=17%  Similarity=0.247  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHH
Q 005055          526 NMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVL  605 (716)
Q Consensus       526 e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i  605 (716)
                      ++......++.++....-.++.+++....++.+.+-+.+++..++.+..-...+......+++-++.|...+..+-+..+
T Consensus       441 ~i~~~~~ei~~L~~~~~~~~~~l~e~~~~l~~~t~~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~  520 (1293)
T KOG0996|consen  441 EIQKCQTEIEQLEELLEKEERELDEILDSLKQETEGIREEIEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGL  520 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444455555555555555555555555555555555555555555555555555555544443


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          606 TKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYG  655 (716)
Q Consensus       606 ~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~  655 (716)
                      .+           ..++++++..+.+.+..-.-.+...+.++..|+.+-.
T Consensus       521 ~~-----------~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~  559 (1293)
T KOG0996|consen  521 KK-----------VEELKGKLLASSESLKEKKTELDDLKEELPSLKQELK  559 (1293)
T ss_pred             HH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            33           3333333334443443334444444444444444433

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.93  E-value=0.0016  Score=61.91  Aligned_cols=57  Identities=23%  Similarity=0.302  Sum_probs=37.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |+|+|..++|||+|+|.|++... .+..++...+|.-++.+..+          ..+.++||+|++..
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~-~~~~~~~~~~t~~~~~~~~~----------~~~~~~D~~g~~~~   58 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKK-LARTSKTPGKTQLINFFNVN----------DKFRLVDLPGYGYA   58 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCc-eeeecCCCCcceeEEEEEcc----------CeEEEecCCCcccc
Confidence            78999999999999999995431 11112223345555554321          16889999998654

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.

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=96.90  E-value=0.12  Score=48.91  Aligned_cols=121  Identities=18%  Similarity=0.253  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHhhhHHHHHHhhH
Q 005055          508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDK---KKLADDYTSRINNLQGENISLREKSSSLS  584 (716)
Q Consensus       508 ~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dl---k~~~e~~~~~~~~l~~k~~~le~~~~~~~  584 (716)
                      .+..+...+.......+..+..++.-++.......+.++.|+..+...   -+.+..++.+.+.++.+...+.....+..
T Consensus         7 ~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~   86 (132)
T PF07926_consen    7 SLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAEAESAK   86 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666677777777777777777777777777777777544433   22333333333333333333333333333


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALS  642 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~  642 (716)
                      ..|+       +.+..    +..+   +..|..+|.+++.|+..+.++-.=|..|++.
T Consensus        87 ~~l~-------~~e~s----w~~q---k~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen   87 AELE-------ESEAS----WEEQ---KEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHH-------HHHHh----HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3333       22222    2222   5668888888888888888888888888764

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=96.89  E-value=0.0036  Score=60.07  Aligned_cols=60  Identities=18%  Similarity=0.295  Sum_probs=38.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +|+|+|..++|||+|+|+|.+..  |... ....+|..+.....+..    .+....+.++||+|.+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~--~~~~-~~~~~t~~~~~~~~~~~----~~~~~~~~iiDtpG~~   61 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTN--VAAG-EAGGITQHIGAFEVPAE----VLKIPGITFIDTPGHE   61 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcc--cccc-cCCCeEEeeccEEEecc----cCCcceEEEEeCCCcH
Confidence            58999999999999999999764  4332 11234444433222221    0123678899999964

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.

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=96.89  E-value=0.82  Score=48.78  Aligned_cols=177  Identities=19%  Similarity=0.299  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH---hhH
Q 005055          508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSS---SLS  584 (716)
Q Consensus       508 ~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~---~~~  584 (716)
                      .+..+...++.+.+.++.++.-++.+....-..    .+-.=+.|.+++.+.+++-++...|...+..+-+...   ..+
T Consensus        31 El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~----rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~~~~~~~  106 (294)
T COG1340          31 ELRKEASELAEKRDELNAKVRELREKAQELREE----RDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRNEFNLGG  106 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Confidence            334444444555555555544444444332222    1122345555677777777777777777766666665   556


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAE------ARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~e------erl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      -.+++.+.++..+....+...-. ......+-..|++|+..+...+      +.+..+.++++..+.++.+...+-+.+.
T Consensus       107 ~~~~~ler~i~~Le~~~~T~~L~-~e~E~~lvq~I~~L~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki~~la  185 (294)
T COG1340         107 RSIKSLEREIERLEKKQQTSVLT-PEEERELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELA  185 (294)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66667777766666666555111 1123344455555554433332      3344555555555555665555555555


Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHH
Q 005055          659 REAKAALEKAAIVQERTSKEMQQREDVLREEF  690 (716)
Q Consensus       659 ~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~  690 (716)
                      +++..-=++-+..|++ .+++..+-|.+-++|
T Consensus       186 ~eaqe~he~m~k~~~~-~De~Rkeade~he~~  216 (294)
T COG1340         186 NEAQEYHEEMIKLFEE-ADELRKEADELHEEF  216 (294)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            5555555555555555 344444444444443

>PRK12289 GTPase RsgA; Reviewed

Probab=96.89  E-value=0.0017  Score=71.45  Aligned_cols=60  Identities=28%  Similarity=0.423  Sum_probs=39.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCC------CcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTH------RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~------~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      +++|+|+.+.|||+|+|.|+|.. ...+|...      +-+|+.+=++.-      ++|    .+|+||+|+..++.
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~-~~~t~~vs~~~~rGrHTT~~~~l~~l------~~g----~~liDTPG~~~~~l  239 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDV-ELRVGKVSGKLGRGRHTTRHVELFEL------PNG----GLLADTPGFNQPDL  239 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCcc-ccccccccCCCCCCCCcCceeEEEEC------CCC----cEEEeCCCcccccc
Confidence            47899999999999999999763 23333211      114566644432      223    27899999865443

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.89  E-value=0.0012  Score=71.97  Aligned_cols=57  Identities=33%  Similarity=0.491  Sum_probs=40.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE-EeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL-WLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI-Wmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      .-|.|+|-+.+|||+|+|.|+|+.. -.+|+.. ..|+|+ |+=..           ..+.|+||+|+--.
T Consensus       133 ~~v~vvG~PNVGKSslIN~L~~k~~-~~~s~~P-G~Tk~~q~i~~~-----------~~i~LlDtPGii~~  190 (322)
T COG1161         133 IRVGVVGYPNVGKSTLINRLLGKKV-AKTSNRP-GTTKGIQWIKLD-----------DGIYLLDTPGIIPP  190 (322)
T ss_pred             eEEEEEcCCCCcHHHHHHHHhcccc-eeeCCCC-ceecceEEEEcC-----------CCeEEecCCCcCCC
Confidence            3499999999999999999999864 3333322 467776 54211           24899999998533

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=96.88  E-value=1.1  Score=50.11  Aligned_cols=178  Identities=24%  Similarity=0.272  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhH
Q 005055          508 QIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK---RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLS  584 (716)
Q Consensus       508 ~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k---~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~  584 (716)
                      .++++++.+..++....++..-|.+++...+..+.....   ..+..+..+.+.++++..++..|+.+.   .++-..|.
T Consensus        42 q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~---r~qr~~La  118 (420)
T COG4942          42 QIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE---REQRRRLA  118 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH---HHHHHHHH
Confidence            446666666555555555555555555444433333222   222223333444444444444444443   44455555


Q ss_pred             HhHHHHHHH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNE----------------ISDWKRKYDQVLTKQKAMEDQVCSEIEVLK---SRSTAAEARLAAAREQALSAQE  645 (716)
Q Consensus       585 ~~le~~k~e----------------~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~---~r~~~~eerl~~~~~ql~~ak~  645 (716)
                      ++|.++..-                .+.--.-|-..++.-      ...+|..|+   ..+......+++-++++..+..
T Consensus       119 ~~L~A~~r~g~~p~~~ll~~~eda~~~~R~ai~~~~l~~~------~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~  192 (420)
T COG4942         119 EQLAALQRSGRNPPPALLVSPEDAQRSVRLAIYYGALNPA------RAERIDALKATLKQLAAVRAEIAAEQAELTTLLS  192 (420)
T ss_pred             HHHHHHHhccCCCCchhhcChhhhhHHHHHHHHHHHhhHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556555541                112222222222222      222222222   2244555556666666666666


Q ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHH
Q 005055          646 EVEEWKRKYGVAVREA---KAALEKAAIVQERTSKEMQQREDVLREEFSSTL  694 (716)
Q Consensus       646 E~~~w~~kY~~~~~~~---Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~  694 (716)
                      |-.+.+++-+.++.+.   .+.|+..++..++-+++....+..|+.++++.-
T Consensus       193 eq~~q~~kl~~~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~~L~~~Ias~e  244 (420)
T COG4942         193 EQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLKNEIASAE  244 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            6777777777776443   355667777788889999999999999998876

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=96.86  E-value=0.00097  Score=61.11  Aligned_cols=57  Identities=28%  Similarity=0.424  Sum_probs=39.3

Q ss_pred             eeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           76 VCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        76 V~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+.++|||+|+|.|.+....    +.....|. ++.+...+..   .+....+.++||+|.+.
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~----~~~~~~t~-~~~~~~~~~~---~~~~~~~~l~D~~g~~~   57 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFV----PEEYETTI-IDFYSKTIEV---DGKKVKLQIWDTAGQER   57 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcC----Ccccccch-hheeeEEEEE---CCEEEEEEEEecCChHH
Confidence            6899999999999999987632    22223344 6666655432   12346799999999753

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

>PRK11058 GTPase HflX; Provisional

Probab=96.85  E-value=0.0034  Score=70.90  Aligned_cols=57  Identities=23%  Similarity=0.267  Sum_probs=39.0

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCC--ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSS--GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~--gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +..|+|+|.+++|||+|+|+|.|...  .-..+.|..+.+..+-+|.         +  ..++|+||.|+
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~---------~--~~~~l~DTaG~  255 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD---------V--GETVLADTVGF  255 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCC---------C--CeEEEEecCcc
Confidence            34689999999999999999998641  0112456666554443332         1  14678999997

>cd01861 Rab6 Rab6 subfamily

Probab=96.85  E-value=0.0018  Score=61.80  Aligned_cols=57  Identities=23%  Similarity=0.341  Sum_probs=36.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|+|++..  |....   +.|.|+-.-...+.   -++..+.+.++||+|.
T Consensus         3 i~liG~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~l~~~D~~G~   59 (161)
T cd01861           3 LVFLGDQSVGKTSIITRFMYDT--FDNQY---QATIGIDFLSKTMY---LEDKTVRLQLWDTAGQ   59 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCccC---CCceeeeEEEEEEE---ECCEEEEEEEEECCCc
Confidence            7899999999999999999876  54321   22333311111110   1244567899999994

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

>cd01868 Rab11_like Rab11-like

Probab=96.85  E-value=0.0018  Score=62.27  Aligned_cols=58  Identities=22%  Similarity=0.393  Sum_probs=39.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      =|+|+|+.++|||+|+|+|++..  |...+   ..|.|+=.+...+.   .++..+.+-++||.|.
T Consensus         5 ki~vvG~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~D~~g~   62 (165)
T cd01868           5 KIVLIGDSGVGKSNLLSRFTRNE--FNLDS---KSTIGVEFATRSIQ---IDGKTIKAQIWDTAGQ   62 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCCCC---CCccceEEEEEEEE---ECCEEEEEEEEeCCCh
Confidence            37899999999999999999876  54322   23555533333222   1345577889999995

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

>cd01855 YqeH YqeH

Probab=96.84  E-value=0.0013  Score=65.58  Aligned_cols=55  Identities=29%  Similarity=0.332  Sum_probs=36.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCC-------ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSS-------GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~-------gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .|.++|..++|||+|+|.|++...       +..+++. ..+|++......        +.  .+.|+||+|+
T Consensus       129 ~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~-~gtT~~~~~~~~--------~~--~~~~~DtPG~  190 (190)
T cd01855         129 DVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPI-PGTTLDLIKIPL--------GN--GKKLYDTPGI  190 (190)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCC-CCeeeeeEEEec--------CC--CCEEEeCcCC
Confidence            588999999999999999998542       2233222 236666543211        11  3688999995

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.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.84  E-value=1.3  Score=57.50  Aligned_cols=29  Identities=17%  Similarity=0.273  Sum_probs=10.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          626 STAAEARLAAAREQALSAQEEVEEWKRKY  654 (716)
Q Consensus       626 ~~~~eerl~~~~~ql~~ak~E~~~w~~kY  654 (716)
                      ....+.++.+++.++..++.+.+.-..+|
T Consensus       451 lee~e~qL~elE~kL~~lea~leql~~~~  479 (1486)
T PRK04863        451 EQEATEELLSLEQKLSVAQAAHSQFEQAY  479 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333

>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=96.83  E-value=0.00087  Score=64.96  Aligned_cols=35  Identities=40%  Similarity=0.598  Sum_probs=26.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL  111 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI  111 (716)
                      |+|+|.+++|||+|+|.|+|.. -++.+.+  +||..+
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~-ilp~~~~--~~T~~~   35 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRP-ILPSGVG--PCTAVP   35 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS--SSSSSS--STTSSE
T ss_pred             CEEEcCCCCCHHHHHHHHHhcc-cCccccc--ccccce
Confidence            7899999999999999999974 3444433  677554

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 ....

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=96.81  E-value=1.5  Score=50.46  Aligned_cols=42  Identities=26%  Similarity=0.113  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          613 DQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKY  654 (716)
Q Consensus       613 ~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY  654 (716)
                      +...+-|+++++.+..++.++..+.+.-...++|+++-..+.
T Consensus       449 ~~~~~~i~E~~~~l~~~~~el~~~~~~~~~~k~e~eee~~k~  490 (581)
T KOG0995|consen  449 SNKASTIEEKIQILGEIELELKKAESKYELKKEEAEEEWKKC  490 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566666666677777777776666666666544443

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=96.78  E-value=0.0033  Score=67.30  Aligned_cols=60  Identities=28%  Similarity=0.319  Sum_probs=41.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +...|.|+|.+++|||+|+|.|.|... ..+++. -.+|+++ -|...       +  ..+.|+||+|+-..
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~-~~~~~~-~g~T~~~-~~~~~-------~--~~~~l~DtPGi~~~  179 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKI-AKTGNR-PGVTKAQ-QWIKL-------G--KGLELLDTPGILWP  179 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCc-cccCCC-CCeEEEE-EEEEe-------C--CcEEEEECCCcCCC
Confidence            445799999999999999999998752 344432 2457774 33211       1  24789999999543

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.78  E-value=0.0022  Score=61.24  Aligned_cols=58  Identities=21%  Similarity=0.178  Sum_probs=40.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |..   ....|.|+-.....+..   +|..+.+-++||.|.+
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~--~~~---~~~~t~~~~~~~~~~~~---~~~~~~l~i~Dt~G~~   60 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR--FVS---KYLPTIGIDYGVKKVSV---RNKEVRVNFFDLSGHP   60 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCC---CCCCccceeEEEEEEEE---CCeEEEEEEEECCccH
Confidence            7899999999999999999876  532   12345555433222221   3556889999999963

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.77  E-value=0.0035  Score=59.72  Aligned_cols=79  Identities=22%  Similarity=0.273  Sum_probs=47.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHHH
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFS  153 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IFa  153 (716)
                      |+++|+.++|||+|+|+|.+..  |.  +...+.+...+.+..     ..++..+.+.++||.|....     ...+...
T Consensus         3 i~~~G~~~~GKTsl~~~l~~~~--~~--~~~~~~~~~~~~~~~-----~~~~~~~~~~i~D~~g~~~~-----~~~~~~~   68 (164)
T cd04139           3 VIVVGAGGVGKSALTLQFMYDE--FV--EDYEPTKADSYRKKV-----VLDGEDVQLNILDTAGQEDY-----AAIRDNY   68 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--Cc--cccCCcchhhEEEEE-----EECCEEEEEEEEECCChhhh-----hHHHHHH
Confidence            7899999999999999999765  32  122333433433322     12455678999999995322     2333333


Q ss_pred             HhhhccceEEEcc
Q 005055          154 LAVLLSSMFIYNQ  166 (716)
Q Consensus       154 La~LLSS~~IyN~  166 (716)
                      +...=.-+++|++
T Consensus        69 ~~~~~~~i~v~d~   81 (164)
T cd04139          69 HRSGEGFLLVFSI   81 (164)
T ss_pred             hhcCCEEEEEEEC
Confidence            4333334566654

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

>COG1084 Predicted GTPase [General function prediction only]

Probab=96.76  E-value=0.0043  Score=66.53  Aligned_cols=102  Identities=18%  Similarity=0.209  Sum_probs=65.6

Q ss_pred             eeeCHHHHHHhhc---cCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeE
Q 005055           54 FRMDPEAVAALQL---VKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNL  130 (716)
Q Consensus        54 l~v~~eAl~~L~~---i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~v  130 (716)
                      |..-.+|.+.|..   |+-..--|-|+|.+..|||+|++.|-+..  -.+.+= -=+||||.+..--.     +  ...+
T Consensus       148 L~fL~~~r~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Ak--pEvA~Y-PFTTK~i~vGhfe~-----~--~~R~  217 (346)
T COG1084         148 LEFLRKARDHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAK--PEVAPY-PFTTKGIHVGHFER-----G--YLRI  217 (346)
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCC--CccCCC-CccccceeEeeeec-----C--CceE
Confidence            4444556666654   44455567789999999999999999875  222221 01699999875321     1  1367


Q ss_pred             EEEeCCCCcccccCCcc---hhHHHHHhhhccceEEEcc
Q 005055          131 LLLDSEGIDAYDQTGTY---STQIFSLAVLLSSMFIYNQ  166 (716)
Q Consensus       131 vlLDTEGl~~~~~~~~~---d~~IFaLa~LLSS~~IyN~  166 (716)
                      =++||+|+-+-.-+.-|   ...|.||.- |-++++|=.
T Consensus       218 QvIDTPGlLDRPl~ErN~IE~qAi~AL~h-l~~~IlF~~  255 (346)
T COG1084         218 QVIDTPGLLDRPLEERNEIERQAILALRH-LAGVILFLF  255 (346)
T ss_pred             EEecCCcccCCChHHhcHHHHHHHHHHHH-hcCeEEEEE
Confidence            78999999543333333   466888864 667777643

>PRK12288 GTPase RsgA; Reviewed

Probab=96.76  E-value=0.0013  Score=72.23  Aligned_cols=58  Identities=26%  Similarity=0.371  Sum_probs=36.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCC-----cc-cceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHR-----PC-TKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~-----~~-TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +++++|+.+.|||+|+|.|+|.. ...+|.-..     .+ |+..=+..-      +.|    .+|+||+|+-.+
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~-~~~t~~is~~~~rGrHTT~~~~l~~l------~~~----~~liDTPGir~~  270 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEA-EILVGDVSDNSGLGQHTTTAARLYHF------PHG----GDLIDSPGVREF  270 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhcccc-ceeeccccCcCCCCcCceeeEEEEEe------cCC----CEEEECCCCCcc
Confidence            46799999999999999999863 233333211     22 333332221      122    258999998543

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=96.76  E-value=0.61  Score=57.54  Aligned_cols=39  Identities=18%  Similarity=0.388  Sum_probs=31.9

Q ss_pred             ceeeCHHHHHHhhccC-CCEEEEEeeCCCCCChhHHHHHh
Q 005055           53 KFRMDPEAVAALQLVK-EPIGVVSVCGRARQGKSFILNQL   91 (716)
Q Consensus        53 ~l~v~~eAl~~L~~i~-~pV~VVsV~G~~rtGKS~LlN~l   91 (716)
                      ++.++.+-.++|..|. +-.+=|+||-..+|||=|-|-.|
T Consensus        69 ~lrl~~~DfeilKvIGrGaFGEV~lVr~k~t~~VYAMK~l  108 (1317)
T KOG0612|consen   69 ELRLKAEDFEILKVIGRGAFGEVALVRHKSTEKVYAMKIL  108 (1317)
T ss_pred             HHhCCHHhhHHHHHhcccccceeEEEEeeccccchhHHHh
Confidence            5778888888888774 67788888888999999988765

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.76  E-value=0.0056  Score=68.37  Aligned_cols=93  Identities=25%  Similarity=0.393  Sum_probs=54.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcc---ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccC-Ccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGF---QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQT-GTY  147 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF---~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~-~~~  147 (716)
                      -+|+|+|.+..|||+|.|+|.|+....   --|-|+.+ ..|.--|.         |  +.+.|+||-|++..+.+ -..
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr-~y~~~~~~---------~--~~f~lIDTgGl~~~~~~~l~~   71 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDR-IYGDAEWL---------G--REFILIDTGGLDDGDEDELQE   71 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCC-ccceeEEc---------C--ceEEEEECCCCCcCCchHHHH
Confidence            379999999999999999999986211   01223322 22333332         2  34789999999744322 111


Q ss_pred             ---hhHHHHHhhhccceEEEccCCCCchHhhh
Q 005055          148 ---STQIFSLAVLLSSMFIYNQMGGIDESAID  176 (716)
Q Consensus       148 ---d~~IFaLa~LLSS~~IyN~~g~i~e~~l~  176 (716)
                         .....|+.--=--.||.+..-.|+..|-+
T Consensus        72 ~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~  103 (444)
T COG1160          72 LIREQALIAIEEADVILFVVDGREGITPADEE  103 (444)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH
Confidence               22233443322334566666667777654

>cd00881 GTP_translation_factor GTP translation factor family

Probab=96.74  E-value=0.0049  Score=60.19  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=20.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |+|+|..++|||+|+|.|++..
T Consensus         2 v~v~G~~~~GKStlln~l~~~~   23 (189)
T cd00881           2 VGIAGHVDHGKTTLTERLLYVT   23 (189)
T ss_pred             EEEEeCCCCCHHHHHHHHHHhc
Confidence            7899999999999999999765

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.

>cd01866 Rab2 Rab2 subfamily

Probab=96.71  E-value=0.0027  Score=61.71  Aligned_cols=61  Identities=25%  Similarity=0.317  Sum_probs=39.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ++.=|+|+|+.++|||+|+|++.+..  |....   +.|.|+=.+...+.   .++..+.+.++||.|.
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~   63 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKR--FQPVH---DLTIGVEFGARMIT---IDGKQIKLQIWDTAGQ   63 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC--CCCCC---CCccceeEEEEEEE---ECCEEEEEEEEECCCc
Confidence            34558999999999999999999865  53322   22444322211111   1344578899999994

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

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=96.71  E-value=0.37  Score=46.41  Aligned_cols=113  Identities=21%  Similarity=0.309  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 005055          554 DKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       554 dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      ++.....+...+++.|+.++..++.++..+..+|..+       +...++.-+.. ..-+.+...|.-|+..+..++.+|
T Consensus        25 ~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~-------k~~lee~~~~~-~~~E~l~rriq~LEeele~ae~~L   96 (143)
T PF12718_consen   25 QLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEA-------KEKLEESEKRK-SNAEQLNRRIQLLEEELEEAEKKL   96 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhHHHHH-HhHHHHHhhHHHHHHHHHHHHHHH
Confidence            3333344444444444444444444444444444444       33443332211 112357777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhh
Q 005055          634 AAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQR  682 (716)
Q Consensus       634 ~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~  682 (716)
                      ..+.+.+..+...+..--|+-..        |+.....+++=++++..+
T Consensus        97 ~e~~ekl~e~d~~ae~~eRkv~~--------le~~~~~~E~k~eel~~k  137 (143)
T PF12718_consen   97 KETTEKLREADVKAEHFERKVKA--------LEQERDQWEEKYEELEEK  137 (143)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHH--------HHhhHHHHHHHHHHHHHH
Confidence            77777777776666644444333        444444444444444433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.71  E-value=0.0014  Score=64.93  Aligned_cols=39  Identities=23%  Similarity=0.388  Sum_probs=30.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeecccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKR  120 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~  120 (716)
                      +|+|+||.++|||||||.++|--    .     |..-.||+-.+-|..
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~----~-----P~~G~i~i~g~d~t~   65 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFE----T-----PASGEILINGVDHTA   65 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhcc----C-----CCCceEEEcCeecCc
Confidence            79999999999999999998743    2     445568887665543

>cd01864 Rab19 Rab19 subfamily

Probab=96.69  E-value=0.0028  Score=61.09  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=38.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .=|+|+|+.++|||+|+|+|.+..  |.-   ....|.|+-.-...+   ..++..+.+.++||.|.
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~~--~~~---~~~~t~~~~~~~~~~---~~~~~~~~l~i~D~~G~   62 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSGT--FSE---RQGNTIGVDFTMKTL---EIEGKRVKLQIWDTAGQ   62 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCC--Ccc---cCCCccceEEEEEEE---EECCEEEEEEEEECCCh
Confidence            347899999999999999998654  422   123455542211111   11344568899999995

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.

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=96.69  E-value=0.69  Score=48.13  Aligned_cols=64  Identities=28%  Similarity=0.241  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKA-AIVQERTSKE  678 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~-~~~~~~~~e~  678 (716)
                      ++.+|.+++.++...+..+++++..++.+=.++.+....|..--..-+..++.+ .+.|+++...
T Consensus       122 l~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~~~~~~~~~~L~~~l~~ell~~yeri~~~  186 (239)
T COG1579         122 LEKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKLDPELLSEYERIRKN  186 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHhc
Confidence            444444444444444444444444443333333332222222222334444333 4567776543

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=96.69  E-value=2.7  Score=51.76  Aligned_cols=159  Identities=17%  Similarity=0.198  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHhcccCCCchhHHHHHHHhhhcc-----chHHHHHHHHHHHHH---H
Q 005055          440 AIQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSE-----GPILDLVKRLIDQIG---S  511 (716)
Q Consensus       440 ~l~~le~~l~~~~~~~~~~~~~~~~~l~~ll~eY~~~~~GP~K~~~L~~FLq~~~~-----~~il~~~k~l~~~i~---~  511 (716)
                      .+++|-+.|++....++++-+.+....++++.-  .-+.-|.--+.|-.-+++.+.     +.|+...+.-+..++   +
T Consensus      1472 el~~Li~~v~~Flt~~~adp~si~~vA~~vL~l--~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s 1549 (1758)
T KOG0994|consen 1472 ELRNLIQQVRDFLTQPDADPDSIEEVAEEVLAL--ELPLTPEQIQQLTGEIQERVASLPNVDAILSRTKGDIARAENLQS 1549 (1758)
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHH
Confidence            344455555555555666666666666666654  233445544555555554443     466654444444433   2


Q ss_pred             HHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHH
Q 005055          512 ERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLK  591 (716)
Q Consensus       512 e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k  591 (716)
                      +-...+.+.+.....++.+++.+++..+-    +..-+..|.+.-+.+.....-+...+.+...-|....+..+++..+.
T Consensus      1550 ~A~~a~~~A~~v~~~ae~V~eaL~~Ad~A----q~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~ 1625 (1758)
T KOG0994|consen 1550 EAERARSRAEDVKGQAEDVVEALEEADVA----QGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELE 1625 (1758)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444555555555444333    22334556666556666666666677777777777777777777777


Q ss_pred             HHHHHHHHHHHHH
Q 005055          592 NEISDWKRKYDQV  604 (716)
Q Consensus       592 ~e~~e~~r~y~~~  604 (716)
                      .-.++++++|-+.
T Consensus      1626 ~~~e~lk~~~~qn 1638 (1758)
T KOG0994|consen 1626 TRMEELKHKAAQN 1638 (1758)
T ss_pred             HHHHHHHHHHHhc
Confidence            7777777777654

>cd01895 EngA2 EngA2 subfamily

Probab=96.69  E-value=0.003  Score=60.41  Aligned_cols=59  Identities=31%  Similarity=0.461  Sum_probs=35.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .|+|+|..++|||+|+|+|+|..  +........+|.....  ..+   ..++  ..+.++||+|++.
T Consensus         4 ~i~i~G~~~~GKstli~~l~~~~--~~~~~~~~~~~~~~~~--~~~---~~~~--~~~~iiDtpG~~~   62 (174)
T cd01895           4 RIAIIGRPNVGKSSLVNALLGEE--RVIVSDIAGTTRDSID--VPF---EYDG--KKYTLIDTAGIRR   62 (174)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCcc--ceeccCCCCCccCcee--eEE---EECC--eeEEEEECCCCcc
Confidence            48999999999999999999874  2111222222222111  111   1123  3477899999864

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.

>PRK03918 chromosome segregation protein; Provisional

Probab=96.68  E-value=2.7  Score=51.89  Aligned_cols=31  Identities=13%  Similarity=0.120  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 005055          613 DQVCSEIEVLKSRSTAAEARLAAAREQALSA  643 (716)
Q Consensus       613 ~~~~~~i~~l~~r~~~~eerl~~~~~ql~~a  643 (716)
                      +.+..++.+++.++..++.++..+++++...
T Consensus       669 ~~l~~~l~~l~~~~~~l~~~i~~l~~~i~~~  699 (880)
T PRK03918        669 LELSRELAGLRAELEELEKRREEIKKTLEKL  699 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444443

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=96.68  E-value=0.0033  Score=60.80  Aligned_cols=52  Identities=25%  Similarity=0.229  Sum_probs=33.9

Q ss_pred             eeCCCCCChhHHHHHhhCCCCccccccC---CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           76 VCGRARQGKSFILNQLLGRSSGFQVAST---HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        76 V~G~~rtGKS~LlN~llg~~~gF~~g~~---~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+.++|||+|+|.|.|..  +.++..   +..++.|...|.        +  ...+.++||+|+.
T Consensus         1 iiG~~~~GKStll~~l~~~~--~~~~~~~~~t~~~~~~~~~~~--------~--~~~~~i~DtpG~~   55 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAK--PKVANYPFTTLEPNLGVVEVP--------D--GARIQVADIPGLI   55 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCC--ccccCCCceeecCcceEEEcC--------C--CCeEEEEeccccc
Confidence            68999999999999999875  223221   112233332221        1  2568999999984

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

>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=96.67  E-value=0.0013  Score=65.52  Aligned_cols=101  Identities=20%  Similarity=0.353  Sum_probs=58.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccc-----------cccC----CCcccceEEeeccccccccCCCCceeEEEEe
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQ-----------VAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLD  134 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~-----------~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLD  134 (716)
                      ++-+|+|+|...+|||+|++.|++......           +...    .+..|..++.+...  .   +...+.+.|+|
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~--~---~~~~~~i~~iD   76 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFE--K---NENNRKITLID   76 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEE--B---TESSEEEEEEE
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhccccccccccccc--c---cccccceeecc
Confidence            678999999999999999999996532111           0001    12234433333322  0   12347899999


Q ss_pred             CCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          135 SEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       135 TEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      |+|...+     ....+-++...=.-++|......++.+..+.+..
T Consensus        77 tPG~~~f-----~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~  117 (188)
T PF00009_consen   77 TPGHEDF-----IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKI  117 (188)
T ss_dssp             ESSSHHH-----HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHH
T ss_pred             cccccce-----eecccceecccccceeeeeccccccccccccccc
Confidence            9995321     1234444443333456676666677666665544

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 ....

>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=96.67  E-value=0.0031  Score=65.49  Aligned_cols=54  Identities=33%  Similarity=0.479  Sum_probs=37.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|+|+|+.++|||+|+|.|.|..  ..++.   ++..++.|.+.|.         |  ..+-++||+|+.
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~--~~v~~~~~tT~~~~~g~~~~~---------~--~~i~l~DtpG~~   58 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTK--SEVAAYEFTTLTCVPGVLEYK---------G--AKIQLLDLPGII   58 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--ccccCCCCccccceEEEEEEC---------C--eEEEEEECCCcc
Confidence            47899999999999999999875  22222   1122345665441         2  567889999974

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.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.66  E-value=3.5  Score=53.51  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=18.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +...|+|+.|||||++|..++
T Consensus        25 g~~~~~G~NGsGKS~~lda~~   45 (1353)
T TIGR02680        25 GRLLLRGNNGAGKSKVLELLL   45 (1353)
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            467889999999999999744

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>COG3596 Predicted GTPase [General function prediction only]

Probab=96.65  E-value=0.002  Score=67.59  Aligned_cols=67  Identities=31%  Similarity=0.427  Sum_probs=43.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC--CccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc-cccCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS--SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA-YDQTG  145 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~--~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~-~~~~~  145 (716)
                      .||. |=|+|.++.|||.|+|.||+..  ..=.||.++++.|. .|..        -++  ..++|.||+|+|+ .++|.
T Consensus        38 ~pvn-vLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~-~~~~--------~~~--~~l~lwDtPG~gdg~~~D~  105 (296)
T COG3596          38 EPVN-VLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTR-LRLS--------YDG--ENLVLWDTPGLGDGKDKDA  105 (296)
T ss_pred             Ccee-EEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhh-HHhh--------ccc--cceEEecCCCcccchhhhH
Confidence            5665 5689999999999999999632  22235556555443 2322        123  5799999999964 33443


Q ss_pred             cc
Q 005055          146 TY  147 (716)
Q Consensus       146 ~~  147 (716)
                      +|
T Consensus       106 ~~  107 (296)
T COG3596         106 EH  107 (296)
T ss_pred             HH
Confidence            33

>cd00154 Rab Rab family

Probab=96.65  E-value=0.0032  Score=59.00  Aligned_cols=57  Identities=23%  Similarity=0.352  Sum_probs=36.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.++|+.++|||+|+|+|.+..  |.-.   ...|.|.=.-..-+..   ++....+.++||+|.
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~--~~~~---~~~t~~~~~~~~~~~~---~~~~~~~~l~D~~g~   59 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK--FDEN---YKSTIGVDFKSKTIEI---DGKTVKLQIWDTAGQ   59 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCCc---cCCceeeeeEEEEEEE---CCEEEEEEEEecCCh
Confidence            7889999999999999999775  3332   1234343222211111   134478899999995

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.62  E-value=0.0034  Score=60.04  Aligned_cols=55  Identities=22%  Similarity=0.349  Sum_probs=37.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce--EEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG--LWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG--IWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|+|++..  |.-  . ...|.|  ...+..++     ++..+.+.++||.|.
T Consensus         4 i~v~G~~~~GKSsli~~l~~~~--~~~--~-~~~t~~~~~~~~~v~~-----~~~~~~~~i~D~~G~   60 (163)
T cd01860           4 LVLLGDSSVGKSSLVLRFVKNE--FSE--N-QESTIGAAFLTQTVNL-----DDTTVKFEIWDTAGQ   60 (163)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC--C-CCCccceeEEEEEEEE-----CCEEEEEEEEeCCch
Confidence            7899999999999999999876  432  1 123444  22222222     344578899999994

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

>cd04118 Rab24 Rab24 subfamily

Probab=96.62  E-value=0.0032  Score=62.57  Aligned_cols=59  Identities=19%  Similarity=0.276  Sum_probs=41.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|++..  |..++.  ..|.|.-.+...+.   .+|..+.+-++||.|..
T Consensus         3 i~vvG~~~vGKSsLi~~~~~~~--~~~~~~--~~t~~~~~~~~~~~---~~~~~~~l~i~D~~G~~   61 (193)
T cd04118           3 VVMLGKESVGKTSLVERYVHHR--FLVGPY--QNTIGAAFVAKRMV---VGERVVTLGIWDTAGSE   61 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--cCCcCc--ccceeeEEEEEEEE---ECCEEEEEEEEECCCch
Confidence            7899999999999999999765  754333  34555444443332   23556778899999964

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

>cd04113 Rab4 Rab4 subfamily

Probab=96.62  E-value=0.0033  Score=60.18  Aligned_cols=58  Identities=22%  Similarity=0.401  Sum_probs=38.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |...   .+.|-|+-.-..++.   .++..+.+.++||+|..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~l~l~D~~G~~   60 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK--FKED---SQHTIGVEFGSKIIR---VGGKRVKLQIWDTAGQE   60 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCC---CCCceeeeEEEEEEE---ECCEEEEEEEEECcchH
Confidence            6899999999999999999765  4332   233444322222221   13455788999999953

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

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.59  E-value=0.0028  Score=70.25  Aligned_cols=26  Identities=27%  Similarity=0.451  Sum_probs=23.3

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ++.+. |+|+||-|||||+|+|+|.+.
T Consensus        15 ~G~Iy-IGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        15 QGDIY-IGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             CCcEE-EEEEcCCCCChHHHHHHHHhh
Confidence            46665 899999999999999999987

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.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=96.57  E-value=0.0067  Score=60.62  Aligned_cols=67  Identities=15%  Similarity=0.263  Sum_probs=42.9

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCC---------CcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTH---------RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~---------~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +--|+|+|..++|||+|+|+|++....|.-..++         ...|.|+=+.......   ++..+.+.|+||.|...
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~---~~~~~~~~l~DtpG~~~   77 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAV---TYKDTKINIVDTPGHAD   77 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEE---EECCEEEEEEECCCcHH
Confidence            3468999999999999999999754445332211         1124555444332211   23457899999999753

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=96.57  E-value=0.0077  Score=66.42  Aligned_cols=58  Identities=34%  Similarity=0.494  Sum_probs=40.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcc---ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGF---QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF---~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..+..|+|+|.+++|||+|+|.|.|.. .+   ..+.|..+.|+-+.+         ++|  ..+.|+||.|+
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~-~~v~~~~~tT~d~~~~~i~~---------~~~--~~i~l~DT~G~  247 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGAD-VYAADQLFATLDPTTRRLDL---------PDG--GEVLLTDTVGF  247 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCc-eeeccCCccccCCEEEEEEe---------CCC--ceEEEEecCcc
Confidence            355689999999999999999999975 11   124455554443322         223  46889999997

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).

>cd04122 Rab14 Rab14 subfamily

Probab=96.57  E-value=0.0038  Score=60.31  Aligned_cols=57  Identities=25%  Similarity=0.408  Sum_probs=39.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|++.+..  |.-   ..+.|.|.=+....+.   .++..+.+.+.||.|.
T Consensus         5 i~iiG~~~vGKTsli~~~~~~~--~~~---~~~~t~~~~~~~~~~~---~~~~~~~l~i~Dt~G~   61 (166)
T cd04122           5 YIIIGDMGVGKSCLLHQFTEKK--FMA---DCPHTIGVEFGTRIIE---VNGQKIKLQIWDTAGQ   61 (166)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCC---CCCcccceeEEEEEEE---ECCEEEEEEEEECCCc
Confidence            6799999999999999999765  532   2234555433322221   2455678999999995

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.57  E-value=0.0032  Score=59.12  Aligned_cols=53  Identities=23%  Similarity=0.365  Sum_probs=37.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |+|+|+.++|||+|+|+|.|..  |...   ...|.|+-.....      .| .+.+.++||+|.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~--~~~~---~~~t~~~~~~~~~------~~-~~~~~~~D~~g~   54 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQ--FSED---TIPTVGFNMRKVT------KG-NVTLKVWDLGGQ   54 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCC--CCcC---ccCCCCcceEEEE------EC-CEEEEEEECCCC
Confidence            7899999999999999999875  5321   1345565443211      12 277899999995

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.

>cd01865 Rab3 Rab3 subfamily

Probab=96.55  E-value=0.0039  Score=60.23  Aligned_cols=58  Identities=19%  Similarity=0.238  Sum_probs=40.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |.-   .-..|.|+-....-+   .+++..+.+.+.||.|..
T Consensus         4 i~i~G~~~~GKSsli~~l~~~~--~~~---~~~~t~~~~~~~~~~---~~~~~~~~~~l~Dt~g~~   61 (165)
T cd01865           4 LLIIGNSSVGKTSFLFRYADDS--FTS---AFVSTVGIDFKVKTV---FRNDKRVKLQIWDTAGQE   61 (165)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCC---CCCCceeeEEEEEEE---EECCEEEEEEEEECCChH
Confidence            7899999999999999999876  532   112366654333222   124556789999999953

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.54  E-value=0.0043  Score=59.19  Aligned_cols=54  Identities=24%  Similarity=0.382  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE----EeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL----WLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI----Wmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|++..  |....   ..|.|+    +.+.       .++..+.+-++||+|..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~--~~~~~---~~~~~~~~~~~~~~-------~~~~~~~~~l~D~~G~~   60 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK--FSEQY---KSTIGVDFKTKTIE-------VDGKRVKLQIWDTAGQE   60 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCCCC---CCceeeEEEEEEEE-------ECCEEEEEEEEECCChH
Confidence            7899999999999999999876  43222   123332    2221       13555788899999953

Rab GTPases are implicated in vesicle trafficking.

>cd04112 Rab26 Rab26 subfamily

Probab=96.54  E-value=0.0035  Score=62.49  Aligned_cols=58  Identities=22%  Similarity=0.347  Sum_probs=38.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|++.+..  |..+..  +.|.|+-.-...+   ..++..+.+.|+||+|-
T Consensus         3 i~vvG~~~vGKTSli~~~~~~~--~~~~~~--~~t~~~~~~~~~~---~~~~~~~~~~i~Dt~G~   60 (191)
T cd04112           3 VMLLGDSGVGKTCLLVRFKDGA--FLNGNF--IATVGIDFRNKVV---TVDGVKVKLQIWDTAGQ   60 (191)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCccCc--CCcccceeEEEEE---EECCEEEEEEEEeCCCc
Confidence            7889999999999999998765  544321  2344432211111   12355678999999994

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.

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=96.52  E-value=0.27  Score=46.58  Aligned_cols=88  Identities=19%  Similarity=0.284  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 005055          557 KLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAA  636 (716)
Q Consensus       557 ~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~  636 (716)
                      .++..+.+++..+.......+.+...+...|+.......+...+|+.-+..+    ......|..++..+..+...++.+
T Consensus         3 ~e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~H----a~~~~~L~~lr~e~~~~~~~~~~l   78 (132)
T PF07926_consen    3 SELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKH----AEDIKELQQLREELQELQQEINEL   78 (132)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666777777777778888888888888888888899999999887665    334566677777777777777777


Q ss_pred             HHHHHHHHHHHH
Q 005055          637 REQALSAQEEVE  648 (716)
Q Consensus       637 ~~ql~~ak~E~~  648 (716)
                      +..++.|+.+..
T Consensus        79 ~~~~~~a~~~l~   90 (132)
T PF07926_consen   79 KAEAESAKAELE   90 (132)
T ss_pred             HHHHHHHHHHHH
Confidence            777777777776

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.52  E-value=0.0055  Score=58.55  Aligned_cols=60  Identities=22%  Similarity=0.302  Sum_probs=39.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|..++|||+|+|++.+..  |.-   ....|.|...-...+.. ...+..+.+.+.||.|..
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~~--~~~---~~~~t~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~   62 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKGI--FTK---DYKKTIGVDFLEKQIFL-RQSDEDVRLMLWDTAGQE   62 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCC---CCCCcEEEEEEEEEEEE-cCCCCEEEEEEeeCCchH
Confidence            7899999999999999999765  532   12345565442222221 112445789999999953

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.51  E-value=0.0095  Score=67.11  Aligned_cols=56  Identities=32%  Similarity=0.614  Sum_probs=36.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcc--ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGF--QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF--~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|+|+|..++|||+|+|+|+|....+  ...+++..+..+.--|.         |  ..+.|+||+|++
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~---------~--~~~~liDTpG~~   58 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWG---------G--REFILIDTGGIE   58 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEEC---------C--eEEEEEECCCCC
Confidence            38999999999999999999876222  11111112223333332         2  458899999985

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.

>cd04136 Rap_like Rap-like subfamily

Probab=96.49  E-value=0.004  Score=59.47  Aligned_cols=58  Identities=26%  Similarity=0.358  Sum_probs=37.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|+.++|||+|+|++.+..  |.-  ...|++.......  +   ..++..+.+-++||.|..
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~~--~~~--~~~~t~~~~~~~~--~---~~~~~~~~l~i~Dt~G~~   60 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQGI--FVE--KYDPTIEDSYRKQ--I---EVDGQQCMLEILDTAGTE   60 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CCc--ccCCchhhhEEEE--E---EECCEEEEEEEEECCCcc
Confidence            37899999999999999999764  532  2223332222221  2   124555778899999964

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.

>PRK04213 GTP-binding protein; Provisional

Probab=96.49  E-value=0.0045  Score=61.97  Aligned_cols=58  Identities=22%  Similarity=0.271  Sum_probs=37.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +..-|+|+|..++|||+|+|+|.|..  |.++... .+|  ....  .+.    .+   .+.++||+|++..
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~--~~~~~~~-~~t--~~~~--~~~----~~---~~~l~Dt~G~~~~   65 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKK--VRVGKRP-GVT--RKPN--HYD----WG---DFILTDLPGFGFM   65 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC--CccCCCC-cee--eCce--EEe----ec---ceEEEeCCccccc
Confidence            34568999999999999999999875  6554321 112  2111  111    11   4789999997543

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.48  E-value=0.0039  Score=59.76  Aligned_cols=57  Identities=25%  Similarity=0.345  Sum_probs=36.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|.+..  |....  .+.+.-.+-  .++   ..++..+.+-++||+|..
T Consensus         3 i~v~G~~~~GKTsli~~~~~~~--~~~~~--~~t~~~~~~--~~~---~~~~~~~~l~i~Dt~g~~   59 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFVQGH--FVDDY--DPTIEDSYR--KQI---EIDGEVCLLDILDTAGQE   59 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCccc--CCchhhhEE--EEE---EECCEEEEEEEEECCCcc
Confidence            7899999999999999999765  43221  122211111  111   123445788899999964

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

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=2.9  Score=49.66  Aligned_cols=129  Identities=19%  Similarity=0.223  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHh
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKS  624 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~  624 (716)
                      +++.|.+++...+-...++..|+-+...+....+.+.+++.....-+..++++-.++   +...+...+...+.+.+++.
T Consensus       508 l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~  587 (698)
T KOG0978|consen  508 LEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQE  587 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555555555444444444444444333   33344445666666776677


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhh
Q 005055          625 RSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREA-----KAALEKAAIVQERTS  676 (716)
Q Consensus       625 r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~-----Ka~leq~~~~~~~~~  676 (716)
                      .+..++..+......+..+++|++..++|+..+=+..     -..|.+++..|+-+|
T Consensus       588 ~~~e~~~ele~~~~k~~rleEE~e~L~~kle~~k~~~~~~s~d~~L~EElk~yK~~L  644 (698)
T KOG0978|consen  588 QYAELELELEIEKFKRKRLEEELERLKRKLERLKKEESGASADEVLAEELKEYKELL  644 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccHHHHHHHHHHHhce
Confidence            7777777777777777888888888888887664333     345677777777654

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=96.47  E-value=0.007  Score=66.84  Aligned_cols=94  Identities=22%  Similarity=0.268  Sum_probs=48.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC---Ccc-ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS---SGF-QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~---~gF-~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      +.|+. |+|+|..++|||+|+|.|.|-.   .|- ++|  +-.+|+-.-.+..|.      -  ..|+|.|.+|.|...-
T Consensus        33 ~~~l~-IaV~G~sGsGKSSfINalrGl~~~d~~aA~tG--v~etT~~~~~Y~~p~------~--pnv~lWDlPG~gt~~f  101 (376)
T PF05049_consen   33 NAPLN-IAVTGESGSGKSSFINALRGLGHEDEGAAPTG--VVETTMEPTPYPHPK------F--PNVTLWDLPGIGTPNF  101 (376)
T ss_dssp             H--EE-EEEEESTTSSHHHHHHHHTT--TTSTTS--SS--SHSCCTS-EEEE-SS---------TTEEEEEE--GGGSS-
T ss_pred             cCceE-EEEECCCCCCHHHHHHHHhCCCCCCcCcCCCC--CCcCCCCCeeCCCCC------C--CCCeEEeCCCCCCCCC
Confidence            35776 9999999999999999998753   222 222  224566666665442      1  2478889999986543


Q ss_pred             CCcchhHHHHHhhhc--cceEEEccCCCCchHhhh
Q 005055          144 TGTYSTQIFSLAVLL--SSMFIYNQMGGIDESAID  176 (716)
Q Consensus       144 ~~~~d~~IFaLa~LL--SS~~IyN~~g~i~e~~l~  176 (716)
                      ..    .=|.=.+-+  -..||.=+.+.+.++++.
T Consensus       102 ~~----~~Yl~~~~~~~yD~fiii~s~rf~~ndv~  132 (376)
T PF05049_consen  102 PP----EEYLKEVKFYRYDFFIIISSERFTENDVQ  132 (376)
T ss_dssp             -H----HHHHHHTTGGG-SEEEEEESSS--HHHHH
T ss_pred             CH----HHHHHHccccccCEEEEEeCCCCchhhHH
Confidence            21    111111111  234555556677777765

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=96.45  E-value=0.0048  Score=58.58  Aligned_cols=56  Identities=27%  Similarity=0.334  Sum_probs=35.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|+|.+..  |.-  ...|++.-.+.....     .++..+.+-++||.|.
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~~--~~~--~~~~t~~~~~~~~~~-----~~~~~~~~~i~Dt~G~   59 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQNH--FVD--EYDPTIEDSYRKQVV-----IDGETCLLDILDTAGQ   59 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CcC--CcCCcchheEEEEEE-----ECCEEEEEEEEECCCC
Confidence            6899999999999999999765  422  112222222222111     1344466778999995

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.

>cd04124 RabL2 RabL2 subfamily

Probab=96.44  E-value=0.0051  Score=59.35  Aligned_cols=56  Identities=20%  Similarity=0.332  Sum_probs=39.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc--eEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK--GLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk--GIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++++..  |.-..   ..|.  +++.|...+     ++..+.+-++||.|..
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~--~~~~~---~~~~~~~~~~~~~~~-----~~~~~~~~i~Dt~G~~   60 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG--YEPQQ---LSTYALTLYKHNAKF-----EGKTILVDFWDTAGQE   60 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCCc---CCceeeEEEEEEEEE-----CCEEEEEEEEeCCCch
Confidence            6889999999999999998764  53221   1232  455554332     4566788899999953

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

>PRK00098 GTPase RsgA; Reviewed

Probab=96.44  E-value=0.0035  Score=67.52  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++++|+.++|||+|+|.|+|..
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCc
Confidence            57799999999999999999864

>cd04116 Rab9 Rab9 subfamily

Probab=96.44  E-value=0.0054  Score=59.36  Aligned_cols=59  Identities=25%  Similarity=0.320  Sum_probs=40.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .=|.|+|+.++|||+|+|++++..  |....   ..|.|.-.+...+.   .++..+.+.++||.|.
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~l~i~D~~G~   64 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTNK--FDTQL---FHTIGVEFLNKDLE---VDGHFVTLQIWDTAGQ   64 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC--CCcCc---CCceeeEEEEEEEE---ECCeEEEEEEEeCCCh
Confidence            347899999999999999999765  53321   23556543333222   2466688999999995

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

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=96.44  E-value=0.42  Score=57.28  Aligned_cols=44  Identities=9%  Similarity=0.202  Sum_probs=25.4

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHH
Q 005055          545 LKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVD  588 (716)
Q Consensus       545 ~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le  588 (716)
                      ++.+...|.+++.+.|++.+++..|...+..=-.-++.+.++|.
T Consensus       455 Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~  498 (697)
T PF09726_consen  455 ERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLA  498 (697)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667777777777777777775555544433333344444433

; GO: 0016021 integral to membrane

>cd01856 YlqF YlqF

Probab=96.42  E-value=0.0055  Score=60.20  Aligned_cols=54  Identities=31%  Similarity=0.458  Sum_probs=36.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .|.++|..+.|||+|+|.|.+... ..+++ .-.+|.+.-+..  +     +   ..+.++||+|+
T Consensus       117 ~~~~~G~~~vGKstlin~l~~~~~-~~~~~-~~~~T~~~~~~~--~-----~---~~~~~iDtpG~  170 (171)
T cd01856         117 RAMVVGIPNVGKSTLINRLRGKKV-AKVGN-KPGVTKGIQWIK--I-----S---PGIYLLDTPGI  170 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc-eeecC-CCCEEeeeEEEE--e-----c---CCEEEEECCCC
Confidence            578999999999999999998762 12222 223566643321  1     1   24789999997

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.

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=96.41  E-value=1.1  Score=51.41  Aligned_cols=110  Identities=13%  Similarity=0.149  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV------LTKQKAMEDQVCSEIEV  621 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~------i~~~k~~~~~~~~~i~~  621 (716)
                      |+..+.+++.++......++.+..++..-|+++..+.++.+.       ++...+-.      ++.......++...++.
T Consensus       278 ~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~-------Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~  350 (581)
T KOG0995|consen  278 FQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDE-------LKKQIELQGISGEDVERMNLERNKLKRELNK  350 (581)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444433333       33333332      34444445666677777


Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          622 LKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAA  664 (716)
Q Consensus       622 l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~  664 (716)
                      ++..+..+...+-++..+.+..-++.+..-++|..+..+.+..
T Consensus       351 i~~~~d~l~k~vw~~~l~~~~~f~~le~~~~~~~~l~~~i~l~  393 (581)
T KOG0995|consen  351 IQSELDRLSKEVWELKLEIEDFFKELEKKFIDLNSLIRRIKLG  393 (581)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7766666666666666666666777777777888777766666

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=96.41  E-value=0.0065  Score=58.08  Aligned_cols=59  Identities=24%  Similarity=0.275  Sum_probs=37.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|+|+|+.++|||+|+|++++..  |..  ...+.+.........     -+|..+.+.++||+|..
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~~--~~~--~~~~t~~~~~~~~~~-----~~~~~~~~~i~Dt~G~~   61 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQSY--FVT--DYDPTIEDSYTKQCE-----IDGQWAILDILDTAGQE   61 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCC--CCc--ccCCCccceEEEEEE-----ECCEEEEEEEEECCCCc
Confidence            347899999999999999999764  421  112322222222111     13445778899999964

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

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=96.41  E-value=3  Score=50.15  Aligned_cols=101  Identities=11%  Similarity=0.121  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 005055          553 NDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEAR  632 (716)
Q Consensus       553 ~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eer  632 (716)
                      ++|.++++++..+.+.-+.-+..+++....+.++|+....+...|..+|+.....+    +.+..+++       .+..+
T Consensus       441 ~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~l----e~l~~El~-------~l~~e  509 (980)
T KOG0980|consen  441 ADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKAL----ESLRQELA-------LLLIE  509 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH----HHHHHHHH-------HHHHH
Confidence            34455566666666555555556677777777777777777777777777754432    22333444       34444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          633 LAAAREQALSAQEEVEEWKRKYGVAVREAKAAL  665 (716)
Q Consensus       633 l~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~l  665 (716)
                      +..+++.+....+.-..|....+.++ +.|-++
T Consensus       510 ~~~lq~~~~~~~qs~~~~~~~l~~~l-~~KD~~  541 (980)
T KOG0980|consen  510 LEELQRTLSNLAQSHNNQLAQLEDLL-KQKDRL  541 (980)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHH-HhhHHH
Confidence            44444444444455555555555555 444443

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=96.40  E-value=3.2  Score=49.30  Aligned_cols=169  Identities=20%  Similarity=0.167  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHH---HHH-------HHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERY---KSE-------YLKRYDDAINDKKKLADDYTSRINNLQGENISLREK  579 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~---~~~-------~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~  579 (716)
                      +-+....+.|.+..+++.+.|+|+.+..+..   .++       ..+++-+...+++++|+...+.+-.|+.=       
T Consensus       336 rc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~e~~-------  408 (1265)
T KOG0976|consen  336 RCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRLEQG-------  408 (1265)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhc-------
Confidence            3344455666777777777777777665522   122       22345555555566666666666444332       


Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          580 SSSLSKTVDSLKNEISDWKRKYDQV----------LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEE  649 (716)
Q Consensus       580 ~~~~~~~le~~k~e~~e~~r~y~~~----------i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~  649 (716)
                          ++.-+++|.|.++-.-+.+.+          +.+.|.+++-......-.=..|...=.|+.++..++        +
T Consensus       409 ----~~dhe~~kneL~~a~ekld~mgthl~mad~Q~s~fk~Lke~aegsrrraIeQcnemv~rir~l~~sl--------e  476 (1265)
T KOG0976|consen  409 ----KKDHEAAKNELQEALEKLDLMGTHLSMADYQLSNFKVLKEHAEGSRRRAIEQCNEMVDRIRALMDSL--------E  476 (1265)
T ss_pred             ----cchhHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhHHHHHHhhhhhHhhHHHHHHHHHHHHHHHhhCh--------h
Confidence                222333333333333322221          111111111111111111112333333444443332        2


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHH
Q 005055          650 WKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK  697 (716)
Q Consensus       650 w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~  697 (716)
                      =+||-.+-++..||++++.+.--+-+-|+.|+.--+||.|++....-|
T Consensus       477 ~qrKVeqe~emlKaen~rqakkiefmkEeiQethldyR~els~lA~r~  524 (1265)
T KOG0976|consen  477 KQRKVEQEYEMLKAENERQAKKIEFMKEEIQETHLDYRSELSELAHRK  524 (1265)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            334555555578999999999999999999999999999998765544

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=96.40  E-value=3  Score=50.61  Aligned_cols=102  Identities=22%  Similarity=0.288  Sum_probs=53.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHH----------------HHHHHHHHHHHH---
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEIS----------------DWKRKYDQVLTK---  607 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~----------------e~~r~y~~~i~~---  607 (716)
                      ++...|.+|+..++-...+++.|+.++..|++.+.-=-.+|+..+.-..                ++...++.++..   
T Consensus       375 ~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~~eker~~e~l~e  454 (775)
T PF10174_consen  375 RLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEALREKERLQERLEE  454 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666677777677766666666666665555443322222222222211                333333333221   


Q ss_pred             --------HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          608 --------QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       608 --------~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                              .+-.-+.++..+.+++..+..++..+++..-++..+++++.
T Consensus       455 ~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~~~kee~s  503 (775)
T PF10174_consen  455 QRERAEKERQEELETYQKELKELKAKLESLQKELSEKELQLEDAKEEAS  503 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHH
Confidence                    11223556666777777677777666666666665555543

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.39  E-value=0.0047  Score=59.82  Aligned_cols=58  Identities=26%  Similarity=0.345  Sum_probs=39.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      =|.|+|+.++|||+|+|++.+..  |.-..   ..|.|+-.....+.   .++..+.+.|.||.|.
T Consensus         5 ki~vvG~~~~GKSsl~~~~~~~~--f~~~~---~~t~~~~~~~~~~~---~~~~~~~l~l~D~~g~   62 (167)
T cd01867           5 KLLLIGDSGVGKSCLLLRFSEDS--FNPSF---ISTIGIDFKIRTIE---LDGKKIKLQIWDTAGQ   62 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHhhCc--CCccc---ccCccceEEEEEEE---ECCEEEEEEEEeCCch
Confidence            37899999999999999999876  53321   23555433222221   1344578899999995

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

>cd01862 Rab7 Rab7 subfamily

Probab=96.38  E-value=0.0058  Score=58.91  Aligned_cols=56  Identities=23%  Similarity=0.350  Sum_probs=36.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE--EeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL--WLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI--Wmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|++..  |....   ..|-|.  +....+.     ++..+.+-++||.|..
T Consensus         3 i~viG~~~~GKSsl~~~l~~~~--~~~~~---~~t~~~~~~~~~~~~-----~~~~~~~~~~D~~g~~   60 (172)
T cd01862           3 VIILGDSGVGKTSLMNQYVNKK--FSNQY---KATIGADFLTKEVTV-----DDKLVTLQIWDTAGQE   60 (172)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCcCc---CCccceEEEEEEEEE-----CCEEEEEEEEeCCChH
Confidence            7899999999999999999875  43322   123332  2211111     2344677899999963

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-

>cd00879 Sar1 Sar1 subfamily

Probab=96.37  E-value=0.011  Score=58.53  Aligned_cols=66  Identities=18%  Similarity=0.235  Sum_probs=41.1

Q ss_pred             HHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccc-cccCCCcccceEEeeccccccccCCCCceeEEEEeCCC
Q 005055           59 EAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQ-VASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEG  137 (716)
Q Consensus        59 eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~-~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEG  137 (716)
                      .+++.|.....+. -|.|+|+.++|||+|+|+|.+..  |. ..++..+ +.|...|         +  .+.+.++||.|
T Consensus         8 ~~~~~~~~~~~~~-ki~ilG~~~~GKStLi~~l~~~~--~~~~~~T~~~-~~~~i~~---------~--~~~~~l~D~~G   72 (190)
T cd00879           8 NVLSSLGLYNKEA-KILFLGLDNAGKTTLLHMLKDDR--LAQHVPTLHP-TSEELTI---------G--NIKFKTFDLGG   72 (190)
T ss_pred             HHHHHhhcccCCC-EEEEECCCCCCHHHHHHHHhcCC--CcccCCccCc-ceEEEEE---------C--CEEEEEEECCC
Confidence            3455554333444 45999999999999999999865  32 1222222 2233322         1  25788999999


Q ss_pred             Cc
Q 005055          138 ID  139 (716)
Q Consensus       138 l~  139 (716)
                      ..
T Consensus        73 ~~   74 (190)
T cd00879          73 HE   74 (190)
T ss_pred             CH
Confidence            53

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=96.37  E-value=0.0044  Score=66.38  Aligned_cols=58  Identities=28%  Similarity=0.397  Sum_probs=36.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCC------CcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTH------RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~------~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+++++|+.++|||+|+|.|+|... +..|...      ..+|....++..|      ++    .+|+||+|+..
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~-~~~g~v~~~~~~g~~tT~~~~~~~~~------~~----~~liDtPG~~~  225 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLD-LATGEISEKLGRGRHTTTHRELFPLP------GG----GLLIDTPGFRE  225 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhh-ccccceeccCCCCCcccceEEEEEcC------CC----CEEEECCCCCc
Confidence            3789999999999999999998631 2222110      1234444443221      11    36899999854

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=96.36  E-value=0.015  Score=65.68  Aligned_cols=56  Identities=36%  Similarity=0.631  Sum_probs=38.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .|+|+|..++|||+|+|+|+|....+ ++.   ++.....|.+.|.         |  +.+.|+||+|+..
T Consensus         3 ~I~ivG~~~vGKStL~n~l~~~~~~~-v~~~~~~t~d~~~~~~~~~---------~--~~~~liDT~G~~~   61 (435)
T PRK00093          3 VVAIVGRPNVGKSTLFNRLTGKRDAI-VADTPGVTRDRIYGEAEWL---------G--REFILIDTGGIEP   61 (435)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCCcccceEEEEEEC---------C--cEEEEEECCCCCC
Confidence            58999999999999999999876321 211   1112223444442         2  5789999999864

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.06  Score=62.66  Aligned_cols=46  Identities=24%  Similarity=0.374  Sum_probs=30.5

Q ss_pred             eEEEEeCCCCcccccCCcchhHHHHHhhhccceEEE--ccCCCCchHhhhhh
Q 005055          129 NLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIY--NQMGGIDESAIDRL  178 (716)
Q Consensus       129 ~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~Iy--N~~g~i~e~~l~~L  178 (716)
                      .|+|+|.+|+|   .+...|+||++.. +=-.+|||  |.-.+...++.+.+
T Consensus       207 DivliDsPGld---~~se~tswid~~c-ldaDVfVlV~NaEntlt~sek~Ff  254 (749)
T KOG0448|consen  207 DIVLIDSPGLD---VDSELTSWIDSFC-LDADVFVLVVNAENTLTLSEKQFF  254 (749)
T ss_pred             cceeccCCCCC---CchhhhHHHHHHh-hcCCeEEEEecCccHhHHHHHHHH
Confidence            68999999975   5677899999874 33455555  55555444444433

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=96.35  E-value=0.0073  Score=61.36  Aligned_cols=22  Identities=36%  Similarity=0.603  Sum_probs=20.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |+|+|...+|||+|+|+|++..
T Consensus         2 i~iiG~~~~GKStL~~~Ll~~~   23 (208)
T cd04166           2 FLTCGSVDDGKSTLIGRLLYDS   23 (208)
T ss_pred             EEEEECCCCCHHHHHHHHHHHc
Confidence            7899999999999999999754

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=96.34  E-value=0.0054  Score=66.69  Aligned_cols=67  Identities=25%  Similarity=0.369  Sum_probs=43.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC--Ccc---ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS--SGF---QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~--~gF---~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +.. |-|||+.++|||+++|.|+|++  +++   +..+...+.|.-|-....-+   ..+|....|-++||+|+|+
T Consensus        23 ~f~-im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l---~e~~~~~~l~vIDtpGfGD   94 (373)
T COG5019          23 DFT-IMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAEL---EEDGFHLNLTVIDTPGFGD   94 (373)
T ss_pred             ceE-EEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeee---ecCCeEEEEEEeccCCccc
Confidence            444 7789999999999999999972  222   12111112233333333222   2357778999999999974

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=96.33  E-value=0.0079  Score=58.49  Aligned_cols=61  Identities=21%  Similarity=0.336  Sum_probs=41.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +.-|.|+|+.++|||+|+|++++..  |.-.   ...|.|+..-...+.   .++..+.+-++||.|..
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   62 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGR--FPER---TEATIGVDFRERTVE---IDGERIKVQLWDTAGQE   62 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC--CCCc---cccceeEEEEEEEEE---ECCeEEEEEEEeCCChH
Confidence            3468999999999999999999754  5322   234555543322221   13556889999999954

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

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=96.33  E-value=0.0063  Score=59.53  Aligned_cols=54  Identities=28%  Similarity=0.417  Sum_probs=36.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccc--cccCC-CcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQ--VASTH-RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~--~g~~~-~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|++++..  |.  +.++. ...++.+++          ++..+.+.|+||+|..
T Consensus         4 v~l~G~~g~GKTtl~~~~~~~~--~~~~~~~t~~~~~~~~~~~----------~~~~~~~~l~D~~g~~   60 (180)
T cd04137           4 IAVLGSRSVGKSSLTVQFVEGH--FVESYYPTIENTFSKIIRY----------KGQDYHLEIVDTAGQD   60 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CccccCcchhhhEEEEEEE----------CCEEEEEEEEECCChH
Confidence            6799999999999999999765  42  11221 122334332          2345678899999964

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.32  E-value=0.0064  Score=58.59  Aligned_cols=57  Identities=23%  Similarity=0.343  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|++++..  |....   ..|-|+-.....+.   .+|..+.+-++||.|.
T Consensus         5 i~i~G~~~vGKSsli~~~~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~D~~G~   61 (166)
T cd01869           5 LLLIGDSGVGKSCLLLRFADDT--YTESY---ISTIGVDFKIRTIE---LDGKTIKLQIWDTAGQ   61 (166)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCCCC---CCccceeEEEEEEE---ECCEEEEEEEEECCCc
Confidence            7899999999999999999765  54321   22444321111111   1345578899999995

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

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=96.31  E-value=1.5  Score=54.31  Aligned_cols=151  Identities=12%  Similarity=0.125  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHH---HHHHHHHHHHHHHHHHHHH----------HHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSL---KNEISDWKRKYDQVLTKQK----------AMEDQ  614 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~---k~e~~e~~r~y~~~i~~~k----------~~~~~  614 (716)
                      ++..++...++..+.++++..+....+.+++++..+.+..+++   .......++..++...+-.          +...+
T Consensus       492 ~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~~~~~~kv~~~rk~le~~~~d~~~e~~~~~kl~~~~~e  571 (1317)
T KOG0612|consen  492 LQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNAADSLEKVNSLRKQLEEAELDMRAESEDAGKLRKHSKE  571 (1317)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhhhhhhhHHHHhhHhhhhhh
Confidence            4444555555555666666666666666666555555544444   2223344444443322222          12234


Q ss_pred             HHHHHHHHH-------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHH--
Q 005055          615 VCSEIEVLK-------SRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDV--  685 (716)
Q Consensus       615 ~~~~i~~l~-------~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~--  685 (716)
                      +..+|....       .+++.+++--..+.+.....+.+.+.-++.|.++. ++.++++..|+..+..++..+..+.-  
T Consensus       572 ~~~~iq~~~e~~~~~~d~l~~le~~k~~ls~~~~~~~~~~e~~~~~~~~~~-e~~~~l~~~i~sL~~~~~~~~~~l~k~~  650 (1317)
T KOG0612|consen  572 LSKQIQQELEENRDLEDKLSLLEESKSKLSKENKKLRSELEKERRQRTEIS-EIIAELKEEISSLEETLKAGKKELLKVE  650 (1317)
T ss_pred             hhHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHHHHHHHHHhhhhHHHHHH
Confidence            444444433       44556665555566666677788888889999888 89999999988877776655443322  


Q ss_pred             -HHHHHHHHHHHHHH
Q 005055          686 -LREEFSSTLAEKVL  699 (716)
Q Consensus       686 -~~~~~~~~~~~~~~  699 (716)
                       ++.+-....+..++
T Consensus       651 el~r~~~e~~~~~ek  665 (1317)
T KOG0612|consen  651 ELKRENQERISDSEK  665 (1317)
T ss_pred             HHHHHHHHHHHHHHH
Confidence             55555555555554

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.30  E-value=1.5  Score=51.65  Aligned_cols=20  Identities=25%  Similarity=0.630  Sum_probs=13.5

Q ss_pred             EEEeecccccccccCccCChHHHHH
Q 005055          210 VWLLRDFYLDLVEDNRKITPRDYLE  234 (716)
Q Consensus       210 ~wlvRDf~l~l~~~g~~~t~~eyLe  234 (716)
                      +|.+-|...    || .++.++|.-
T Consensus       234 IW~LsDvd~----DG-kL~~dEfil  253 (1118)
T KOG1029|consen  234 IWTLSDVDG----DG-KLSADEFIL  253 (1118)
T ss_pred             heeeeccCC----CC-cccHHHHHH
Confidence            788888764    34 467777743

>cd04109 Rab28 Rab28 subfamily

Probab=96.29  E-value=0.008  Score=61.23  Aligned_cols=58  Identities=21%  Similarity=0.229  Sum_probs=40.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|..++|||+|+|+|.+..  |.-   ....|.|+-.+...+..  +++..+.+.|.||.|.
T Consensus         3 i~ivG~~~vGKSsLi~~l~~~~--~~~---~~~~T~~~d~~~~~i~~--~~~~~~~~~i~Dt~G~   60 (215)
T cd04109           3 IVVLGDGAVGKTSLCRRFAKEG--FGK---SYKQTIGLDFFSKRVTL--PGNLNVTLQVWDIGGQ   60 (215)
T ss_pred             EEEECcCCCCHHHHHHHHhcCC--CCC---CCCCceeEEEEEEEEEe--CCCCEEEEEEEECCCc
Confidence            6899999999999999999765  532   22457776554433321  2334588999999994

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

>cd00157 Rho Rho (Ras homology) family

Probab=96.29  E-value=0.0074  Score=58.08  Aligned_cols=57  Identities=25%  Similarity=0.348  Sum_probs=38.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |...  ..+.+...+....++     ++..+.+.++||+|..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~--~~~~--~~~~~~~~~~~~~~~-----~~~~~~l~~~D~~g~~   59 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK--FPTE--YVPTVFDNYSATVTV-----DGKQVNLGLWDTAGQE   59 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCC--CCCceeeeeEEEEEE-----CCEEEEEEEEeCCCcc
Confidence            6799999999999999999876  4221  112222223322222     3556789999999975

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

>cd00876 Ras Ras family

Probab=96.27  E-value=0.0067  Score=57.42  Aligned_cols=57  Identities=30%  Similarity=0.431  Sum_probs=36.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |.-  ...+.|.-.+.+  .+   ..++..+.+.++||+|..
T Consensus         2 i~i~G~~~~GKTsli~~l~~~~--~~~--~~~~~~~~~~~~--~~---~~~~~~~~~~l~D~~g~~   58 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKGT--FVE--EYDPTIEDSYRK--TI---VVDGETYTLDILDTAGQE   58 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCc--CcCCChhHeEEE--EE---EECCEEEEEEEEECCChH
Confidence            7899999999999999999775  422  222333322222  11   112344778899999954

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

>cd04123 Rab21 Rab21 subfamily

Probab=96.27  E-value=0.0081  Score=56.96  Aligned_cols=56  Identities=21%  Similarity=0.436  Sum_probs=36.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCccc-ceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCT-KGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~T-kGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |+|+|+.++|||+|+|+|++..  |.-  ...+.+ ..++-..  +.   ..+..+.+.++||.|.
T Consensus         3 i~i~G~~~~GKStli~~l~~~~--~~~--~~~~~~~~~~~~~~--~~---~~~~~~~~~~~D~~g~   59 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVENK--FNE--KHESTTQASFFQKT--VN---IGGKRIDLAIWDTAGQ   59 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCC--CcCCccceeEEEEE--EE---ECCEEEEEEEEECCch
Confidence            7899999999999999999765  422  111222 2222221  11   1244578899999995

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

>cd04177 RSR1 RSR1 subgroup

Probab=96.26  E-value=0.0075  Score=58.46  Aligned_cols=58  Identities=24%  Similarity=0.421  Sum_probs=38.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+++|+.++|||+|+|++.+..  |.  .+..|.+...|..  .+.   -++..+.+-++||+|...
T Consensus         4 i~liG~~~~GKTsli~~~~~~~--~~--~~~~~t~~~~~~~--~~~---~~~~~~~~~i~Dt~G~~~   61 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV--FI--ESYDPTIEDSYRK--QVE---IDGRQCDLEILDTAGTEQ   61 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CC--cccCCcchheEEE--EEE---ECCEEEEEEEEeCCCccc
Confidence            7899999999999999998665  52  2233444334422  221   134457888999999653

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

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=96.25  E-value=4.1  Score=49.05  Aligned_cols=31  Identities=26%  Similarity=0.263  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHhhHHHHhhHHHHHHHHHHH
Q 005055          663 AALEKAAIVQERTSKEMQQREDVLREEFSST  693 (716)
Q Consensus       663 a~leq~~~~~~~~~e~~q~~e~~~~~~~~~~  693 (716)
                      ..||-.-...|.|.|-.+.-|.+||+|+--.
T Consensus       472 ~dlEalee~~EQL~Esn~ele~DLreEld~~  502 (1243)
T KOG0971|consen  472 GDLEALEEMNEQLQESNRELELDLREELDMA  502 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555566666666667777777776433

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.25  E-value=6.5  Score=51.30  Aligned_cols=177  Identities=19%  Similarity=0.231  Sum_probs=87.5

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH---HHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHH---
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAIND---KKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNE---  593 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~d---lk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e---  593 (716)
                      ++.++.+...+..++...-....+.+-++++....   .+-+.+...++++-++....-|+.++..-.+.|.+..++   
T Consensus       138 le~l~~~n~~l~~ql~ss~~~~~e~e~r~~e~~s~~vs~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re~s~  217 (1822)
T KOG4674|consen  138 LEALESENKDLNDQLKSSTKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRREHSI  217 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhh
Confidence            33444444444444443333333333333332222   255555556666666666666666666666666666655   


Q ss_pred             -HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Q 005055          594 -ISDWKRKYDQVLTKQKAM---EDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEE-----------VEEWKRKYGVAV  658 (716)
Q Consensus       594 -~~e~~r~y~~~i~~~k~~---~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E-----------~~~w~~kY~~~~  658 (716)
                       +++++.+....-.+...+   -+.+..++.+|..++..+...++.+..+...-+.+           .+-|+.+-+.+-
T Consensus       218 ~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie~~~~~ls~~k~t~~s~~~kf~~El~~q~kL~eL~ks~~ee~~  297 (1822)
T KOG4674|consen  218 EVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIESLNLELSKLKDTAESSEEKFEKELSTQKKLNELWKSKLEELS  297 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             333333333331111111   12233334444444444444444444443333333           345777777666


Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHH
Q 005055          659 REAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEK  697 (716)
Q Consensus       659 ~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~  697 (716)
                       ..-+.+.++|...+++++++..+=.+.-.-+...-.-+
T Consensus       298 -~~~~el~~~i~~~~klled~~~~~~e~~d~l~e~~~sl  335 (1822)
T KOG4674|consen  298 -HEVAELQRAIEELEKLLEDASERNKENTDQLKELEQSL  335 (1822)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence             34455788888888888888777666554444444444

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=96.24  E-value=0.0078  Score=58.56  Aligned_cols=58  Identities=16%  Similarity=0.267  Sum_probs=39.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+++...  |...   ...|.|+-+-...+.   .++..+.+.++||.|..
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~l~i~Dt~G~~   60 (166)
T cd00877           3 LVLVGDGGTGKTTFVKRHLTGE--FEKK---YVATLGVEVHPLDFH---TNRGKIRFNVWDTAGQE   60 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCC---CCCceeeEEEEEEEE---ECCEEEEEEEEECCCCh
Confidence            7899999999999999998554  4322   234555533222221   14556889999999964

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

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.24  E-value=0.0067  Score=62.99  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|||+||.+.|||||||.++|-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            89999999999999999999865

>cd01889 SelB_euk SelB subfamily

Probab=96.24  E-value=0.011  Score=59.07  Aligned_cols=64  Identities=20%  Similarity=0.220  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCC--cccc-------ccCCCcccceEEeecccccc---ccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSS--GFQV-------ASTHRPCTKGLWLWSAPLKR---TALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~--gF~~-------g~~~~~~TkGIWmw~~p~~~---~~~~g~~~~vvlLDTEGl  138 (716)
                      |+|+|..++|||+|+|+|.+...  -|..       |.|. ..+...+.|..+-..   ..+++..+.+.++||+|.
T Consensus         3 i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~   78 (192)
T cd01889           3 VGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITL-DLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH   78 (192)
T ss_pred             EEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCee-eecceEEEecccccccccccccccCceEEEEECCCc
Confidence            78999999999999999997421  0111       1111 112222344322100   012344578999999996

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

>PLN03118 Rab family protein; Provisional

Probab=96.22  E-value=0.008  Score=60.94  Aligned_cols=57  Identities=23%  Similarity=0.317  Sum_probs=38.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|++..  |..   . ..|.|.-.+...+.   .++..+.+.|+||.|..
T Consensus        17 v~ivG~~~vGKTsli~~l~~~~--~~~---~-~~t~~~~~~~~~~~---~~~~~~~l~l~Dt~G~~   73 (211)
T PLN03118         17 ILLIGDSGVGKSSLLVSFISSS--VED---L-APTIGVDFKIKQLT---VGGKRLKLTIWDTAGQE   73 (211)
T ss_pred             EEEECcCCCCHHHHHHHHHhCC--CCC---c-CCCceeEEEEEEEE---ECCEEEEEEEEECCCch
Confidence            6699999999999999999865  421   1 23455422222111   13455789999999953

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=96.22  E-value=0.0049  Score=64.51  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ++.++|+.+.|||+|+|.|+|.
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~  143 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPS  143 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhh
Confidence            6789999999999999999986

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd04155 Arl3 Arl3 subfamily

Probab=96.21  E-value=0.016  Score=56.18  Aligned_cols=53  Identities=26%  Similarity=0.362  Sum_probs=34.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      -|+|+|+.++|||+|+|.|.|..  |..    ...|.|+-.-  .+   ..+|  ..+.++||.|.
T Consensus        16 ~v~i~G~~g~GKStLl~~l~~~~--~~~----~~~t~g~~~~--~i---~~~~--~~~~~~D~~G~   68 (173)
T cd04155          16 RILILGLDNAGKTTILKQLASED--ISH----ITPTQGFNIK--TV---QSDG--FKLNVWDIGGQ   68 (173)
T ss_pred             EEEEEccCCCCHHHHHHHHhcCC--Ccc----cCCCCCcceE--EE---EECC--EEEEEEECCCC
Confidence            49999999999999999999864  321    1234552110  00   0122  56888999995

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.

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.20  E-value=2.6  Score=50.22  Aligned_cols=205  Identities=15%  Similarity=0.141  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHHHHHHHHHHHHHH------------
Q 005055          502 VKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYD---DAINDKKKLADDYTSRI------------  566 (716)
Q Consensus       502 ~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~le---e~i~dlk~~~e~~~~~~------------  566 (716)
                      ..+-.+........++--++.++.+++.++++.++++.+.++++..++   +...+|+++++.++.+.            
T Consensus       648 ~~k~~e~l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg~~~~~~~~~~q  727 (970)
T KOG0946|consen  648 AEKYHEELDDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLGIISSKQRDLLQ  727 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHh
Confidence            333333333333444444555566666666665555554444443333   23334455555555444            


Q ss_pred             ------------HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhhhHHHHHH
Q 005055          567 ------------NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQ--VCSEIEVLKSRSTAAEAR  632 (716)
Q Consensus       567 ------------~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~--~~~~i~~l~~r~~~~eer  632 (716)
                                  +.+..++.++....-.+.++|..-..-+..|+..-....+.+.+.-..  .+-++.++..+++....|
T Consensus       728 ~~e~~~t~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~~~~~~~~~~~qeqv~El~~~l~e~~~~  807 (970)
T KOG0946|consen  728 GAEASKTQNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAELSQGSLNDNLGDQEQVIELLKNLSEESTR  807 (970)
T ss_pred             HHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcccchhhhhhhhHHHHHHHHHhhhhhhhH
Confidence                        334444444444444455555444444555554444333322222211  122233332223333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHH
Q 005055          633 LAAAREQALSAQEEVEEWKRKY-------------GVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVL  699 (716)
Q Consensus       633 l~~~~~ql~~ak~E~~~w~~kY-------------~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~  699 (716)
                      +..+..++.+-+++.+.-..+-             ...+++.+...+|+.+-|-.-++....--+++.+.+++.-+++|.
T Consensus       808 l~~~q~e~~~~keq~~t~~~~tsa~a~~le~m~~~~~~la~e~~~ieq~ls~l~~~~k~~~nli~~ltEk~~sl~~qads  887 (970)
T KOG0946|consen  808 LQELQSELTQLKEQIQTLLERTSAAADSLESMGSTEKNLANELKLIEQKLSNLQEKIKFGNNLIKELTEKISSLEAQADS  887 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhccccchhhHHHHHHHHHHHHHHHhhhhhhHHHHHhhhhhhHHHhhcc
Confidence            3333333333333333222221             223345556666666666555555556666677777777777777


Q ss_pred             HHHhhhh
Q 005055          700 SYLSRSL  706 (716)
Q Consensus       700 ~~~~~~~  706 (716)
                      +-++..+
T Consensus       888 e~l~ka~  894 (970)
T KOG0946|consen  888 ETLSKAL  894 (970)
T ss_pred             hHHHHHH
Confidence            7665443

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=96.20  E-value=0.008  Score=57.93  Aligned_cols=57  Identities=26%  Similarity=0.487  Sum_probs=36.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|++++++..  |. + ...+.+..+..+.  +   ..++..+.+-++||.|..
T Consensus         2 i~vvG~~~~GKtsli~~~~~~~--~~-~-~~~~t~~~~~~~~--~---~~~~~~~~~~i~D~~g~~   58 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLTKR--FI-G-EYDPNLESLYSRQ--V---TIDGEQVSLEILDTAGQQ   58 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHhCc--cc-c-ccCCChHHhceEE--E---EECCEEEEEEEEECCCCc
Confidence            7899999999999999998754  42 1 1112221121111  1   124556788899999964

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

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=96.20  E-value=2.2  Score=49.84  Aligned_cols=111  Identities=16%  Similarity=0.207  Sum_probs=66.4

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH--------H
Q 005055          578 EKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE--------E  649 (716)
Q Consensus       578 ~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~--------~  649 (716)
                      .++++-...|.++..-+++..|-..+.|....++........++++.+...+|++..++++..+.|+.+..        +
T Consensus       498 ~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qat~d~a~~Dlqk~nrlkQde  577 (961)
T KOG4673|consen  498 TKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQATNDEARSDLQKENRLKQDE  577 (961)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhhHHHHhhhhhhH
Confidence            33444444555566667777777778777777777666677777777777888888888888888887441        1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH
Q 005055          650 WKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS  692 (716)
Q Consensus       650 w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~  692 (716)
                      -+...+.++ .+=-.|-   .+.++.-..+--|||-+|.|+-.
T Consensus       578 ar~~~~~lv-qqv~dLR---~~L~~~Eq~aarrEd~~R~Ei~~  616 (961)
T KOG4673|consen  578 ARERESMLV-QQVEDLR---QTLSKKEQQAARREDMFRGEIED  616 (961)
T ss_pred             HHHHHHHHH-HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            222233333 1111221   22333334455677777776543

>cd01863 Rab18 Rab18 subfamily

Probab=96.19  E-value=0.008  Score=57.42  Aligned_cols=58  Identities=24%  Similarity=0.378  Sum_probs=36.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|++..  |...   ...|.|.=.-..-+   ..++..+.+.|+||+|..
T Consensus         3 i~v~G~~~~GKSsli~~l~~~~--~~~~---~~~~~~~~~~~~~~---~~~~~~~~~~l~D~~g~~   60 (161)
T cd01863           3 ILLIGDSGVGKSSLLLRFTDDT--FDPD---LAATIGVDFKVKTL---TVDGKKVKLAIWDTAGQE   60 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCcc---cCCcccceEEEEEE---EECCEEEEEEEEECCCch
Confidence            7899999999999999999765  4321   12233321110000   012345789999999953

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

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=96.18  E-value=0.01  Score=58.86  Aligned_cols=54  Identities=19%  Similarity=0.235  Sum_probs=36.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccc-ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQV-ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~-g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|+|+|+.++|||+|+|+|.|..  |.. .+|..+ |.+...+         +  .+.+.++||.|..
T Consensus        18 ~~i~ivG~~~~GKTsli~~l~~~~--~~~~~~t~~~-~~~~~~~---------~--~~~~~~~D~~G~~   72 (184)
T smart00178       18 AKILFLGLDNAGKTTLLHMLKNDR--LAQHQPTQHP-TSEELAI---------G--NIKFTTFDLGGHQ   72 (184)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC--CcccCCcccc-ceEEEEE---------C--CEEEEEEECCCCH
Confidence            457899999999999999999864  432 223222 3333332         1  2678899999964

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.17  E-value=0.029  Score=63.18  Aligned_cols=61  Identities=30%  Similarity=0.452  Sum_probs=36.9

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..-|+|+|..++|||+|+|+|+|... ..++ ....+|....  ..++.   .+|  ..+.|+||.|+..
T Consensus       172 ~~~v~ivG~~~~GKSsLin~l~~~~~-~~~~-~~~gtt~~~~--~~~~~---~~~--~~~~liDT~G~~~  232 (429)
T TIGR03594       172 PIKIAIIGRPNVGKSTLVNALLGEER-VIVS-DIAGTTRDSI--DIPFE---RNG--KKYLLIDTAGIRR  232 (429)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCe-eecC-CCCCceECcE--eEEEE---ECC--cEEEEEECCCccc
Confidence            35699999999999999999998752 1111 1112222111  11111   123  3688999999853

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=96.17  E-value=0.0079  Score=67.36  Aligned_cols=62  Identities=32%  Similarity=0.508  Sum_probs=41.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ...+. |+|+|++..|||.|||.|+|...  ++-+.+-.+|+.+-=-.  +   .-+|  +.|.|+||-|+-
T Consensus       215 r~G~k-vvIiG~PNvGKSSLLNaL~~~d~--AIVTdI~GTTRDviee~--i---~i~G--~pv~l~DTAGiR  276 (454)
T COG0486         215 REGLK-VVIIGRPNVGKSSLLNALLGRDR--AIVTDIAGTTRDVIEED--I---NLNG--IPVRLVDTAGIR  276 (454)
T ss_pred             hcCce-EEEECCCCCcHHHHHHHHhcCCc--eEecCCCCCccceEEEE--E---EECC--EEEEEEecCCcc
Confidence            34565 78999999999999999999863  22233334555543211  1   1234  789999999984

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.17  E-value=1.3  Score=53.79  Aligned_cols=33  Identities=15%  Similarity=0.138  Sum_probs=12.8

Q ss_pred             HHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 005055          569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKY  601 (716)
Q Consensus       569 l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y  601 (716)
                      ++.+...+..++...+.++-+++.++.+.++.+
T Consensus       300 l~~~~~~l~~~y~~~hP~v~~l~~qi~~l~~~i  332 (754)
T TIGR01005       300 LRATIADLSTTMLANHPRVVAAKSSLADLDAQI  332 (754)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHH
Confidence            333333333333333334444444444444333

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=96.16  E-value=0.013  Score=62.26  Aligned_cols=58  Identities=33%  Similarity=0.423  Sum_probs=37.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +...|.|+|.+++|||+|+|.|.|.. ...+++. -.+|++. -|.. +      +.  .+.|+||+|+-
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~-~~~~~~~-~g~T~~~-~~~~-~------~~--~~~l~DtPG~~  174 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKK-VAKVGNR-PGVTKGQ-QWIK-L------SD--GLELLDTPGIL  174 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC-ccccCCC-CCeecce-EEEE-e------CC--CEEEEECCCcc
Confidence            34569999999999999999999864 1233332 1235442 2211 1      11  36899999984

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=96.16  E-value=0.027  Score=63.69  Aligned_cols=56  Identities=30%  Similarity=0.445  Sum_probs=36.8

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc----eEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK----GLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk----GIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+|+|..++|||+|+|.|+|... +.+++. ...|.    ..|.|         ++  ..+.|+||.|+.
T Consensus       173 ~~~v~ivG~~n~GKStlin~ll~~~~-~~~~~~-~gtt~~~~~~~~~~---------~~--~~~~lvDT~G~~  232 (435)
T PRK00093        173 PIKIAIIGRPNVGKSSLINALLGEER-VIVSDI-AGTTRDSIDTPFER---------DG--QKYTLIDTAGIR  232 (435)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCc-eeecCC-CCceEEEEEEEEEE---------CC--eeEEEEECCCCC
Confidence            45699999999999999999998752 222221 12222    22222         22  457899999985

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.16  E-value=0.78  Score=52.46  Aligned_cols=32  Identities=9%  Similarity=0.059  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHH
Q 005055          561 DYTSRINNLQGENISLREKSSSLSKTVDSLKN  592 (716)
Q Consensus       561 ~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~  592 (716)
                      .+.++++.+..+...++.+...+..++++.++
T Consensus       169 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~  200 (457)
T TIGR01000       169 AAEKTKAQLDQQISKTDQKLQDYQALKNAISN  200 (457)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44444555555555555555555555554444

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>cd04127 Rab27A Rab27a subfamily

Probab=96.15  E-value=0.01  Score=58.02  Aligned_cols=63  Identities=21%  Similarity=0.175  Sum_probs=40.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccc-------cCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRT-------ALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~-------~~~g~~~~vvlLDTEGl  138 (716)
                      +.=|.|+|+.++|||+|+|++.+..  |.-.   ...|.|+......+...       .-++..+.+-|+||.|.
T Consensus         4 ~~ki~ivG~~~vGKTsli~~~~~~~--~~~~---~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   73 (180)
T cd04127           4 LIKFLALGDSGVGKTSFLYQYTDNK--FNPK---FITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ   73 (180)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC--CCcc---CCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh
Confidence            3447899999999999999998765  5322   12355554432222111       11245578999999994

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=96.15  E-value=0.0085  Score=68.08  Aligned_cols=61  Identities=30%  Similarity=0.439  Sum_probs=38.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .++ -|+|+|++++|||+|+|+|++....| + +....+|.-+...  .+.   .+|  +.+.++||.|+.
T Consensus       202 ~g~-kVvIvG~~nvGKSSLiN~L~~~~~ai-v-s~~pgtTrd~~~~--~i~---~~g--~~v~l~DTaG~~  262 (442)
T TIGR00450       202 DGF-KLAIVGSPNVGKSSLLNALLKQDRAI-V-SDIKGTTRDVVEG--DFE---LNG--ILIKLLDTAGIR  262 (442)
T ss_pred             cCC-EEEEECCCCCcHHHHHHHHhCCCCcc-c-CCCCCcEEEEEEE--EEE---ECC--EEEEEeeCCCcc
Confidence            344 47899999999999999999875222 2 2222334332211  111   123  567899999974

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.

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=96.15  E-value=4.3  Score=49.47  Aligned_cols=167  Identities=17%  Similarity=0.181  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHH---HHHHHHHHhHHHHHHHHHHHHHHHHHHH----------HHHHHHhhhH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSE---RYKSEYLKRYDDAINDKKKLADDYTSRI----------NNLQGENISL  576 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~---~~~~~~~k~lee~i~dlk~~~e~~~~~~----------~~l~~k~~~l  576 (716)
                      .++...+..|++.+++++..+.+++-+.+   +...+-...+++.+.-.++-++....+.          .++.....++
T Consensus       407 eke~KnLs~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~~s~~rq~~e~e~~~q~ls~~~Q~~~et~el  486 (1195)
T KOG4643|consen  407 EKEHKNLSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVTRSLSRQSLENEELDQLLSLQDQLEAETEEL  486 (1195)
T ss_pred             HHHhHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            56667788999999998887777665544   4444444445555554444444432222          3444444455


Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          577 REKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGV  656 (716)
Q Consensus       577 e~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~  656 (716)
                      ..++..+.+-|.....+.+-|.-++..+.++.|.    ...+...+.++|..+++.+.-+++.-.....++.       .
T Consensus       487 ~~~iknlnk~L~~r~~elsrl~a~~~elkeQ~kt----~~~qye~~~~k~eeLe~~l~~lE~ENa~LlkqI~-------~  555 (1195)
T KOG4643|consen  487 LNQIKNLNKSLNNRDLELSRLHALKNELKEQYKT----CDIQYELLSNKLEELEELLGNLEEENAHLLKQIQ-------S  555 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-------H
Confidence            5555666666666666666666666665555443    2333344444555555555555554333333333       2


Q ss_pred             HHH--HHHHHHHHHHHHHHHhhHHHHhhHHHHH
Q 005055          657 AVR--EAKAALEKAAIVQERTSKEMQQREDVLR  687 (716)
Q Consensus       657 ~~~--~~Ka~leq~~~~~~~~~e~~q~~e~~~~  687 (716)
                      |..  +-.+.|||.++-.+...++.++--|+|-
T Consensus       556 Lk~t~qn~~~LEq~~n~lE~~~~elkk~idaL~  588 (1195)
T KOG4643|consen  556 LKTTSQNGALLEQNNNDLELIHNELKKYIDALN  588 (1195)
T ss_pred             HHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            221  4567888888888877777777767665

>cd04110 Rab35 Rab35 subfamily

Probab=96.14  E-value=0.0084  Score=60.28  Aligned_cols=58  Identities=21%  Similarity=0.307  Sum_probs=39.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE--EeeccccccccCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL--WLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI--Wmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +.=|.|+|+.++|||+|+|++++..  |.-   .-..|.|+  .+|..-     .+|..+.+.|+||.|.
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~~--~~~---~~~~t~~~~~~~~~~~-----~~~~~~~l~l~D~~G~   65 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADNT--FSG---SYITTIGVDFKIRTVE-----INGERVKLQIWDTAGQ   65 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC--CCC---CcCccccceeEEEEEE-----ECCEEEEEEEEeCCCc
Confidence            3448899999999999999999875  531   11345553  233221     1355578899999995

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

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=96.14  E-value=3.8  Score=50.01  Aligned_cols=185  Identities=16%  Similarity=0.196  Sum_probs=112.2

Q ss_pred             HHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHH
Q 005055          515 SLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEI  594 (716)
Q Consensus       515 ~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~  594 (716)
                      ..+.++++.+.+++.++.++..++...+-. +++...+.-...++.....++  =+.....+-+.+..+.+.++.++.++
T Consensus       681 ~~~~~~~~~q~el~~le~eL~~le~~~~kf-~~l~~ql~l~~~~l~l~~~r~--~~~e~~~~~~~~~~~~e~v~e~~~~I  757 (1174)
T KOG0933|consen  681 QAQKELRAIQKELEALERELKSLEAQSQKF-RDLKQQLELKLHELALLEKRL--EQNEFHKLLDDLKELLEEVEESEQQI  757 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH--hcChHhhHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666666665555332111 122222222222222222222  12233445566667777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          595 SDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQER  674 (716)
Q Consensus       595 ~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~  674 (716)
                      -+-.+.|...-...+..+......-++-++|+..++..+..+...++....+++.=.++|+.+. -.-..+++++..+++
T Consensus       758 ke~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~-lE~e~l~~e~~~~k~  836 (1174)
T KOG0933|consen  758 KEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQ-LEHEELEKEISSLKQ  836 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            7777777766555544444444444544556777777777777776666666666667788777 456778899999999


Q ss_pred             hhHHHHhhHHHHHHHHHHHHHHHHHHHHh
Q 005055          675 TSKEMQQREDVLREEFSSTLAEKVLSYLS  703 (716)
Q Consensus       675 ~~e~~q~~e~~~~~~~~~~~~~~~~~~~~  703 (716)
                      .+++....-+.|-.+....-+.=...+..
T Consensus       837 ~l~~~~~~~~~l~~e~~~l~~kv~~~~~~  865 (1174)
T KOG0933|consen  837 QLEQLEKQISSLKSELGNLEAKVDKVEKD  865 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHhH
Confidence            99998888888888877766554444433

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=96.14  E-value=0.0083  Score=68.34  Aligned_cols=58  Identities=36%  Similarity=0.493  Sum_probs=36.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|+|+|.+.+|||+|+|.|+|....+ ++ .....|..+.....     ..+|  ..+.|+||.|+.
T Consensus       217 kV~ivG~~nvGKSSLln~L~~~~~a~-v~-~~~gtT~d~~~~~i-----~~~g--~~i~l~DT~G~~  274 (449)
T PRK05291        217 KVVIAGRPNVGKSSLLNALLGEERAI-VT-DIAGTTRDVIEEHI-----NLDG--IPLRLIDTAGIR  274 (449)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcc-cC-CCCCcccccEEEEE-----EECC--eEEEEEeCCCCC
Confidence            58999999999999999999875222 21 12223433222111     1123  468899999974

>PRK03003 GTP-binding protein Der; Reviewed

Probab=96.13  E-value=0.032  Score=63.95  Aligned_cols=56  Identities=27%  Similarity=0.346  Sum_probs=36.9

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc----eEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK----GLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk----GIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+|+|..++|||+|+|+|+|..  +...+.....|.    +.|.+         +|  ..+.|+||.|+.
T Consensus       211 ~~kI~iiG~~nvGKSSLin~l~~~~--~~~~s~~~gtT~d~~~~~~~~---------~~--~~~~l~DTaG~~  270 (472)
T PRK03003        211 PRRVALVGKPNVGKSSLLNKLAGEE--RSVVDDVAGTTVDPVDSLIEL---------GG--KTWRFVDTAGLR  270 (472)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCC--cccccCCCCccCCcceEEEEE---------CC--EEEEEEECCCcc
Confidence            3578999999999999999999875  222222222232    22322         23  356789999974

>cd01859 MJ1464 MJ1464

Probab=96.13  E-value=0.02  Score=55.03  Aligned_cols=55  Identities=36%  Similarity=0.482  Sum_probs=35.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..|.++|..++|||+|+|.|.+.. ...++++. .+|+.+-+-..       +   ..+.|+||+|+
T Consensus       102 ~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~-~~t~~~~~~~~-------~---~~~~~~DtpGi  156 (156)
T cd01859         102 GKVGVVGYPNVGKSSIINALKGRH-SASTSPSP-GYTKGEQLVKI-------T---SKIYLLDTPGV  156 (156)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC-ccccCCCC-CeeeeeEEEEc-------C---CCEEEEECcCC
Confidence            345999999999999999999753 24444433 23444321110       1   24789999995

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=96.13  E-value=0.0091  Score=57.94  Aligned_cols=57  Identities=21%  Similarity=0.346  Sum_probs=37.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++++..  |.-  ...|++...+..  .+   ..++..+.+.++||.|..
T Consensus         4 i~iiG~~~~GKTsl~~~~~~~~--~~~--~~~~t~~~~~~~--~~---~~~~~~~~l~i~Dt~G~~   60 (175)
T cd01870           4 LVIVGDGACGKTCLLIVFSKDQ--FPE--VYVPTVFENYVA--DI---EVDGKQVELALWDTAGQE   60 (175)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCC--CCCCccccceEE--EE---EECCEEEEEEEEeCCCch
Confidence            7899999999999999999865  532  122322222222  22   124556789999999964

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

>cd04111 Rab39 Rab39 subfamily

Probab=96.12  E-value=0.0099  Score=60.56  Aligned_cols=59  Identities=25%  Similarity=0.346  Sum_probs=40.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |.-.   ...|.|+-.+...+.  ..+|..+.+.+.||.|..
T Consensus         5 IvvvG~~~vGKTsLi~~l~~~~--~~~~---~~~ti~~d~~~~~i~--~~~~~~~~l~i~Dt~G~~   63 (211)
T cd04111           5 LIVIGDSTVGKSSLLKRFTEGR--FAEV---SDPTVGVDFFSRLIE--IEPGVRIKLQLWDTAGQE   63 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCCC---CCceeceEEEEEEEE--ECCCCEEEEEEEeCCcch
Confidence            7899999999999999999765  5322   234666533332221  123556789999999953

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.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.10  E-value=0.0084  Score=65.58  Aligned_cols=65  Identities=23%  Similarity=0.260  Sum_probs=42.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC----CccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS----SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~----~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|=|||+.++|||||+|.|+++.    .-+...+..-..|..|=....-+   .++|-...|=++||+|+|+
T Consensus        23 tlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~i---ee~g~~l~LtvidtPGfGD   91 (366)
T KOG2655|consen   23 TLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEI---EENGVKLNLTVIDTPGFGD   91 (366)
T ss_pred             EEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeee---cCCCeEEeeEEeccCCCcc
Confidence            47789999999999999999873    11111112222344444333222   3578888999999999964

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=96.10  E-value=0.01  Score=56.20  Aligned_cols=57  Identities=21%  Similarity=0.218  Sum_probs=35.5

Q ss_pred             eeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           76 VCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        76 V~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      |+|..++|||+|+|+|.|..  |..+.. ..+|.........+     +|  ..+.|+||+|++...
T Consensus         1 l~G~~~~GKssl~~~~~~~~--~~~~~~-~~~t~~~~~~~~~~-----~~--~~~~liDtpG~~~~~   57 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGAR--QKVGNW-PGVTVEKKEGRFKL-----GG--KEIEIVDLPGTYSLS   57 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCc--ccccCC-CCcccccceEEEee-----CC--eEEEEEECCCccccC
Confidence            68999999999999999875  444332 12233322111101     12  468999999986443

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.

>cd04125 RabA_like RabA-like subfamily

Probab=96.09  E-value=0.011  Score=58.58  Aligned_cols=58  Identities=21%  Similarity=0.300  Sum_probs=38.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|++.+..  |...   -..|.|.-.....+.   .+|..+.+-++||.|..
T Consensus         3 i~v~G~~~vGKSsli~~~~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~g~~   60 (188)
T cd04125           3 VVIIGDYGVGKSSLLKRFTEDE--FSES---TKSTIGVDFKIKTVY---IENKIIKLQIWDTNGQE   60 (188)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCCC---CCCceeeEEEEEEEE---ECCEEEEEEEEECCCcH
Confidence            7899999999999999999776  6321   123445322211121   23556788899999953

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.

>cd01893 Miro1 Miro1 subfamily

Probab=96.08  E-value=0.011  Score=57.18  Aligned_cols=54  Identities=15%  Similarity=0.143  Sum_probs=35.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccc--cCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVA--STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g--~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.  ++....|.++.+          ++..+.+.++||.|.+
T Consensus         3 v~ivG~~~vGKTsl~~~l~~~~--~~~~~~~~~~~~~~~~~~----------~~~~~~~~i~Dt~G~~   58 (166)
T cd01893           3 IVLIGDEGVGKSSLIMSLVSEE--FPENVPRVLPEITIPADV----------TPERVPTTIVDTSSRP   58 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCccCCCcccceEeeeee----------cCCeEEEEEEeCCCch
Confidence            6789999999999999999765  5211  111112222221          2455789999999964

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=96.08  E-value=0.021  Score=69.20  Aligned_cols=56  Identities=23%  Similarity=0.346  Sum_probs=40.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccC----CCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      .|+++|.+++|||+|.|+|.|..  +.+|+.    ++ ...|.+.|           .+..+.++||+|..+..
T Consensus         5 ~IaLvG~pNvGKSTLfN~Ltg~~--~~vgn~pGvTve-~k~g~~~~-----------~~~~i~lvDtPG~ysl~   64 (772)
T PRK09554          5 TIGLIGNPNSGKTTLFNQLTGAR--QRVGNWAGVTVE-RKEGQFST-----------TDHQVTLVDLPGTYSLT   64 (772)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--CccCCCCCceEe-eEEEEEEc-----------CceEEEEEECCCccccc
Confidence            48999999999999999999875  345443    22 22455443           12568899999997654

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=96.07  E-value=0.0094  Score=65.31  Aligned_cols=56  Identities=20%  Similarity=0.256  Sum_probs=39.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ++=|+|+|.+.+|||+|||.|.+..  ..+++   |+..-+.|+..|.        ++  ..+++.||+|+
T Consensus       158 ~adVglVG~PNaGKSTLln~ls~a~--~~va~ypfTT~~p~~G~v~~~--------~~--~~~~i~D~PGl  216 (335)
T PRK12299        158 LADVGLVGLPNAGKSTLISAVSAAK--PKIADYPFTTLHPNLGVVRVD--------DY--KSFVIADIPGL  216 (335)
T ss_pred             cCCEEEEcCCCCCHHHHHHHHHcCC--CccCCCCCceeCceEEEEEeC--------CC--cEEEEEeCCCc
Confidence            5569999999999999999998754  22222   2222345766552        12  45889999998

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.07  E-value=3.3  Score=48.27  Aligned_cols=143  Identities=19%  Similarity=0.233  Sum_probs=84.3

Q ss_pred             HHHHHHHhhcHHHHHHHHHHHHHHHHH-HHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHH
Q 005055          513 RSSLMLKYRSIEDNMKLLKKQLEDSER-YKS------EYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSK  585 (716)
Q Consensus       513 ~~~l~~k~~s~e~e~~~l~k~~e~~~~-~~~------~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~  585 (716)
                      ...+..+.......+..|+..++.... .+.      .........+..++...++....+.........|.....+|..
T Consensus       237 ~k~Le~kL~~a~~~l~~Lq~El~~~~~~~l~~~~~~~~~~~~~~~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~  316 (522)
T PF05701_consen  237 AKDLESKLAEASAELESLQAELEAAKESKLEEEAEAKEKSSELQSSLASAKKELEEAKKELEKAKEEASSLRASVESLRS  316 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555556566555555443 111      1122344456666777777777777777777777788888888


Q ss_pred             hHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          586 TVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYG  655 (716)
Q Consensus       586 ~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~  655 (716)
                      .|+..|.++...+.+....   +.+....-..+.++|...+.......+....+...|+.+..|++.=+.+-.
T Consensus       317 ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~~~k~~~~~l~~~Lqql~~Eae~Ak~ea~  389 (522)
T PF05701_consen  317 ELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEEKAKEAMSELPKALQQLSSEAEEAKKEAE  389 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888777665   555544455555555555444444444445555555555555554444433

Several sequences in this family are described as being myosin heavy chain-like.

>cd04135 Tc10 TC10 subfamily

Probab=96.07  E-value=0.011  Score=57.21  Aligned_cols=59  Identities=24%  Similarity=0.383  Sum_probs=38.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |.|+|+.++|||+|+|++.+..  |.-.  ..|.+...|.-  .+.   .++..+.+-++||.|.+..
T Consensus         3 i~i~G~~~~GKTsl~~~~~~~~--~~~~--~~~t~~~~~~~--~~~---~~~~~~~~~i~Dt~G~~~~   61 (174)
T cd04135           3 CVVVGDGAVGKTCLLMSYANDA--FPEE--YVPTVFDHYAV--SVT---VGGKQYLLGLYDTAGQEDY   61 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCC--CCCceeeeeEE--EEE---ECCEEEEEEEEeCCCcccc
Confidence            6899999999999999999765  5321  12322233322  221   1344567779999997543

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

>cd04175 Rap1 Rap1 subgroup

Probab=96.05  E-value=0.022  Score=54.65  Aligned_cols=58  Identities=24%  Similarity=0.362  Sum_probs=35.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|..++|||+|+|+++...  |.  ....|++.......  +.   .++..+.+-+.||.|..
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~~--~~--~~~~~t~~~~~~~~--~~---~~~~~~~l~i~Dt~G~~   60 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQGI--FV--EKYDPTIEDSYRKQ--VE---VDGQQCMLEILDTAGTE   60 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CC--cccCCcchheEEEE--EE---ECCEEEEEEEEECCCcc
Confidence            37899999999999999998543  42  11223222221111  11   13455778899999964

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=96.02  E-value=0.012  Score=59.01  Aligned_cols=58  Identities=26%  Similarity=0.221  Sum_probs=39.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|+|++..  |.-   ....|.|.-.-...+.  ..+|..+.+.|+||.|.
T Consensus         3 ivivG~~~vGKTsli~~l~~~~--~~~---~~~~t~~~d~~~~~v~--~~~~~~~~l~l~Dt~G~   60 (201)
T cd04107           3 VLVIGDLGVGKTSIIKRYVHGI--FSQ---HYKATIGVDFALKVIE--WDPNTVVRLQLWDIAGQ   60 (201)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC---CCCCceeEEEEEEEEE--ECCCCEEEEEEEECCCc
Confidence            6799999999999999999765  432   1234666432211111  11256688999999996

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=96.02  E-value=0.0085  Score=64.07  Aligned_cols=65  Identities=20%  Similarity=0.341  Sum_probs=35.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |=|||..|+|||+|+|.|++..- +....    ...+....+=+-...+.. ..+|..+.+-++||+|+|+
T Consensus         7 ImVvG~sG~GKTTFIntL~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~l-~e~~~~l~LtiiDTpGfGd   75 (281)
T PF00735_consen    7 IMVVGESGLGKTTFINTLFNSDI-ISEDSSIPPPSASISRTLEIEERTVEL-EENGVKLNLTIIDTPGFGD   75 (281)
T ss_dssp             EEEEECTTSSHHHHHHHHHTSS----------S------SCEEEEEEEEEE-EETCEEEEEEEEEEC-CSS
T ss_pred             EEEECCCCCCHHHHHHHHHhccc-ccccccccccccccccccceeeEEEEe-ccCCcceEEEEEeCCCccc
Confidence            56899999999999999998741 11110    001111222222222221 2346667889999999974

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=96.02  E-value=0.013  Score=57.33  Aligned_cols=56  Identities=23%  Similarity=0.184  Sum_probs=36.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+++|+.++|||+|+|+|.+..  |. +.   ..|.|.-+..  +.     ...+.+.++||.|..
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~--~~-~~---~~t~~~~~~~--~~-----~~~~~~~l~D~~G~~   70 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGE--VV-HT---SPTIGSNVEE--IV-----YKNIRFLMWDIGGQE   70 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCC--CC-Cc---CCccccceEE--EE-----ECCeEEEEEECCCCH
Confidence            4567899999999999999998654  32 11   2233332211  10     123689999999964

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.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=96.02  E-value=1  Score=43.14  Aligned_cols=29  Identities=24%  Similarity=0.221  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSE  538 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~  538 (716)
                      ..+...+..++.+++.+++.+...++.+.
T Consensus        16 ~~e~dsle~~v~~LEreLe~~q~~~e~~~   44 (140)
T PF10473_consen   16 ESEKDSLEDHVESLERELEMSQENKECLI   44 (140)
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHhHHHHH
Confidence            44555555555555555555555543333

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.02  E-value=0.49  Score=51.73  Aligned_cols=43  Identities=23%  Similarity=0.232  Sum_probs=18.8

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALS----AQEEVEEWKRKYGVA  657 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~----ak~E~~~w~~kY~~~  657 (716)
                      +...|+++..+.+.+.++++++++.+..    ...|....+.+|+.+
T Consensus       242 l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~L  288 (325)
T PF08317_consen  242 LEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDAL  288 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            4444444444444444444444433331    234455455554443

>PRK03003 GTP-binding protein Der; Reviewed

Probab=96.01  E-value=0.014  Score=66.88  Aligned_cols=73  Identities=32%  Similarity=0.543  Sum_probs=45.4

Q ss_pred             eeeCHHHHHHhhccC-CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc----eEEeeccccccccCCCCce
Q 005055           54 FRMDPEAVAALQLVK-EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK----GLWLWSAPLKRTALDGTEY  128 (716)
Q Consensus        54 l~v~~eAl~~L~~i~-~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk----GIWmw~~p~~~~~~~g~~~  128 (716)
                      ..++.+-+..|...+ .+...|+|+|..++|||+|+|+|+|... +.+.++ ...|.    +...|         +|  .
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~V~IvG~~nvGKSSL~nrl~~~~~-~~v~~~-~gvT~d~~~~~~~~---------~~--~   86 (472)
T PRK03003         20 WELDDEDLAELEAAEGGPLPVVAVVGRPNVGKSTLVNRILGRRE-AVVEDV-PGVTRDRVSYDAEW---------NG--R   86 (472)
T ss_pred             cccchhhHHhhhcccCCCCCEEEEEcCCCCCHHHHHHHHhCcCc-ccccCC-CCCCEeeEEEEEEE---------CC--c
Confidence            555666665555322 3446799999999999999999998651 222221 11222    22222         22  3


Q ss_pred             eEEEEeCCCCc
Q 005055          129 NLLLLDSEGID  139 (716)
Q Consensus       129 ~vvlLDTEGl~  139 (716)
                      .+.|+||.|++
T Consensus        87 ~~~l~DT~G~~   97 (472)
T PRK03003         87 RFTVVDTGGWE   97 (472)
T ss_pred             EEEEEeCCCcC
Confidence            57889999975

>cd04157 Arl6 Arl6 subfamily

Probab=96.00  E-value=0.015  Score=55.43  Aligned_cols=55  Identities=25%  Similarity=0.262  Sum_probs=34.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |.... . ..|.|+=...  +     ....+.+.++||+|..
T Consensus         2 i~~vG~~~~GKTsl~~~l~~~~--~~~~~-~-~~t~g~~~~~--~-----~~~~~~~~l~Dt~G~~   56 (162)
T cd04157           2 ILVVGLDNSGKTTIINQLKPEN--AQSQI-I-VPTVGFNVES--F-----EKGNLSFTAFDMSGQG   56 (162)
T ss_pred             EEEECCCCCCHHHHHHHHcccC--CCcce-e-cCccccceEE--E-----EECCEEEEEEECCCCH
Confidence            6789999999999999999753  21111 1 2244431111  0     0123778899999953

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

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=95.99  E-value=1.5  Score=49.03  Aligned_cols=101  Identities=14%  Similarity=0.145  Sum_probs=43.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRS  626 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~  626 (716)
                      .++.....++.+.+.+..+++.++.+...++.++..+..++...+.+..-++.=|+.-+..+.. -...+.++..++..+
T Consensus       134 ~~~~~~~~~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~~~L~~~g~is~~~-~~~~~~~~~~~~~~l  212 (423)
T TIGR01843       134 LFESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELEARRKLKEKGLVSRLE-LLELERERAEAQGEL  212 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHH-HHHHHHHHHHHHhHH
Confidence            3334444444444445555555555555555555555555555555444443333321111100 012333333444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 005055          627 TAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       627 ~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      ..++.++..++.+++.++.+..
T Consensus       213 ~~~~~~l~~~~~~l~~~~~~~~  234 (423)
T TIGR01843       213 GRLEAELEVLKRQIDELQLERQ  234 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444433

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>PTZ00258 GTP-binding protein; Provisional

Probab=95.99  E-value=0.0096  Score=66.32  Aligned_cols=68  Identities=16%  Similarity=0.047  Sum_probs=40.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccc----cCCCcccceEEeeccccc-----cccCC-CCceeEEEEeCCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA----STHRPCTKGLWLWSAPLK-----RTALD-GTEYNLLLLDSEGI  138 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g----~~~~~~TkGIWmw~~p~~-----~~~~~-g~~~~vvlLDTEGl  138 (716)
                      ....-|+|+|.+.+|||||+|.|.+..  -.++    .|..| ..|+.-|..+-.     ...|. .....+.|+||+|+
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~--~~v~n~pftTi~p-~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGL   95 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQ--VPAENFPFCTIDP-NTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGL   95 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCc--ccccCCCCCcccc-eEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCc
Confidence            334469999999999999999997764  2222    23333 347765542110     00000 01135899999998


Q ss_pred             c
Q 005055          139 D  139 (716)
Q Consensus       139 ~  139 (716)
                      -
T Consensus        96 v   96 (390)
T PTZ00258         96 V   96 (390)
T ss_pred             C
Confidence            3

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=95.98  E-value=0.015  Score=55.44  Aligned_cols=54  Identities=22%  Similarity=0.177  Sum_probs=35.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |. .  . ..|.|+=.....      .+..+.+.++||.|..
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~--~~-~--~-~~t~~~~~~~~~------~~~~~~l~i~D~~G~~   55 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAE--LV-T--T-IPTVGFNVEMLQ------LEKHLSLTVWDVGGQE   55 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC--cc-c--c-cCccCcceEEEE------eCCceEEEEEECCCCH
Confidence            6789999999999999999876  42 1  1 234443221111      1234789999999964

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

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=95.97  E-value=2.8  Score=50.87  Aligned_cols=30  Identities=23%  Similarity=0.376  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhcHHHHHHHHHH
Q 005055          503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKK  532 (716)
Q Consensus       503 k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k  532 (716)
                      +++++.-...+..+..-++.++.++..|+.
T Consensus       230 q~~ie~Kd~ki~~lEr~l~~le~Ei~~L~~  259 (775)
T PF10174_consen  230 QTVIEEKDTKIASLERMLRDLEDEIYRLRS  259 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334333333344443334444444444443

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=95.96  E-value=0.011  Score=57.45  Aligned_cols=57  Identities=25%  Similarity=0.282  Sum_probs=36.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|++++..  |....  .+ |.+--... .+   ..++..+.+.++||.|..
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~--~~~~~--~~-~~~~~~~~-~~---~~~~~~~~~~i~Dt~G~~   57 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNA--FPEDY--VP-TVFENYSA-DV---EVDGKPVELGLWDTAGQE   57 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCC--CCCCC--CC-cEEeeeeE-EE---EECCEEEEEEEEECCCCc
Confidence            5799999999999999999865  53221  12 22221111 11   124556789999999964

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

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=95.96  E-value=3  Score=44.91  Aligned_cols=109  Identities=21%  Similarity=0.299  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhH----HhHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Q 005055          549 DDAINDKKKLADDYTSRINNLQGENISLREKSSSLS----KTVDSLKNEISDWK----RKYDQVLTKQKAMEDQVCSEIE  620 (716)
Q Consensus       549 ee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~----~~le~~k~e~~e~~----r~y~~~i~~~k~~~~~~~~~i~  620 (716)
                      ++-+..|..+...++.+.+.|..+..+.|++.+.|.    ++|..+..++..+.    ++.++... ++.....|.++|.
T Consensus       166 q~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~r-QQEEIt~Llsqiv  244 (306)
T PF04849_consen  166 QEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRR-QQEEITSLLSQIV  244 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            333344444444444444444444444444444433    46666666654433    33333333 4455666777777


Q ss_pred             HHHhhhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          621 VLKSRSTAA-------EARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       621 ~l~~r~~~~-------eerl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      +++.|+...       ...|.+..+.-.....|..+.+.||...+
T Consensus       245 dlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~  289 (306)
T PF04849_consen  245 DLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECM  289 (306)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777775443       23344444444455567777777777766

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>PRK01156 chromosome segregation protein; Provisional

Probab=95.94  E-value=5.2  Score=49.72  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      -+|..|+|+.|+|||+|+..|.
T Consensus        23 ~gi~~I~G~NGsGKSsileAI~   44 (895)
T PRK01156         23 TGINIITGKNGAGKSSIVDAIR   44 (895)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3588999999999999999975

>cd04140 ARHI_like ARHI subfamily

Probab=95.94  E-value=0.014  Score=56.39  Aligned_cols=58  Identities=19%  Similarity=0.265  Sum_probs=36.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|+|+|..++|||+|+|++++..  |...  ..|.+....-  ..+.   .++..+.+.+.||.|..
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~~--f~~~--~~~t~~~~~~--~~~~---~~~~~~~l~i~Dt~G~~   60 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKGT--FRES--YIPTIEDTYR--QVIS---CSKNICTLQITDTTGSH   60 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CCCC--cCCcchheEE--EEEE---ECCEEEEEEEEECCCCC
Confidence            37899999999999999999765  5322  1122211111  1111   12344778899999964

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

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=95.93  E-value=3.7  Score=48.75  Aligned_cols=104  Identities=14%  Similarity=0.212  Sum_probs=65.1

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          580 SSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEI---EVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGV  656 (716)
Q Consensus       580 ~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i---~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~  656 (716)
                      ++....+=..+|....|+...|-.+-|+.--+.+.++++-   .+|..++..+++.+..+++++...-+|+..|...+++
T Consensus       155 ~SRAlsQN~eLK~QL~Elq~~Fv~ltne~~elt~~lq~Eq~~~keL~~kl~~l~~~l~~~~e~le~K~qE~~~Lq~q~dq  234 (617)
T PF15070_consen  155 ASRALSQNRELKEQLAELQDAFVKLTNENMELTSALQSEQHVKKELQKKLGELQEKLHNLKEKLELKSQEAQSLQEQRDQ  234 (617)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4444455557778888888888877666544444444432   2566777788888888888888888888887765544


Q ss_pred             HHH-------------HHHHHHHHHHHHHHHhhHHHHhhH
Q 005055          657 AVR-------------EAKAALEKAAIVQERTSKEMQQRE  683 (716)
Q Consensus       657 ~~~-------------~~Ka~leq~~~~~~~~~e~~q~~e  683 (716)
                      .++             ..|..|-+..-.+-.+++..|..|
T Consensus       235 ~~~~Lqqy~a~~q~l~~e~e~L~~q~l~Qtql~d~lq~eE  274 (617)
T PF15070_consen  235 YLGHLQQYVAAYQQLASEKEELHKQLLQQTQLMDRLQHEE  274 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            331             344455544444445555555444

>cd04117 Rab15 Rab15 subfamily

Probab=95.93  E-value=0.013  Score=56.49  Aligned_cols=58  Identities=19%  Similarity=0.366  Sum_probs=38.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++++..  |....   ..|.|+-....++.   .++..+.+-+.||.|..
T Consensus         3 i~vvG~~~~GKTsli~~~~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~l~i~D~~g~~   60 (161)
T cd04117           3 LLLIGDSGVGKTCLLCRFTDNE--FHSSH---ISTIGVDFKMKTIE---VDGIKVRIQIWDTAGQE   60 (161)
T ss_pred             EEEECcCCCCHHHHHHHHhcCC--CCCCC---CCceeeEEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            7899999999999999999765  64321   23555422222221   13455778899999853

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

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=95.92  E-value=0.029  Score=59.27  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |+|+|..++|||+|+|+|++.
T Consensus         2 i~ivG~~gsGKStL~~~Ll~~   22 (268)
T cd04170           2 IALVGHSGSGKTTLAEALLYA   22 (268)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999864

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.92  E-value=0.01  Score=57.00  Aligned_cols=59  Identities=24%  Similarity=0.271  Sum_probs=35.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccc-cccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQ-VASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~-~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|.+.....+ .-...-..|.|+-.....+     +  +..+.++||.|..
T Consensus         2 i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~-----~--~~~~~l~Dt~G~~   61 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEV-----G--NARLKFWDLGGQE   61 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEE-----C--CEEEEEEECCCCh
Confidence            68899999999999999987431100 0011112233433322111     1  3678999999964

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.92  E-value=2  Score=48.72  Aligned_cols=42  Identities=12%  Similarity=0.168  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 005055          562 YTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQ  603 (716)
Q Consensus       562 ~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~  603 (716)
                      +..++..++.+..++..++..-+..+-+++.++.++++....
T Consensus       259 l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~  300 (444)
T TIGR03017       259 LKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNA  300 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444433

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=95.90  E-value=0.57  Score=50.29  Aligned_cols=130  Identities=18%  Similarity=0.246  Sum_probs=64.8

Q ss_pred             HHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHH
Q 005055          516 LMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEIS  595 (716)
Q Consensus       516 l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~  595 (716)
                      |+.|++.++++-..|+.....+......++..-+..|.|--++......+++.|......-.+.+....+++.++..++.
T Consensus       165 Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~Llsqiv  244 (306)
T PF04849_consen  165 LQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSLLSQIV  244 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444433333222233222333344444555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHH------H----HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          596 DWKRKYDQVLTK------Q----KAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKR  652 (716)
Q Consensus       596 e~~r~y~~~i~~------~----k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~  652 (716)
                      ++.++.++.-.+      +    |.....+.+       .+..+++|.++..+.+..|++|....++
T Consensus       245 dlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~a-------EL~elqdkY~E~~~mL~EaQEElk~lR~  304 (306)
T PF04849_consen  245 DLQQRCKQLAAENEELQQHLQASKESQRQLQA-------ELQELQDKYAECMAMLHEAQEELKTLRK  304 (306)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            555555554211      1    111222333       3557777777777777778877775543

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>cd01884 EF_Tu EF-Tu subfamily

Probab=95.89  E-value=0.024  Score=57.23  Aligned_cols=99  Identities=13%  Similarity=0.177  Sum_probs=53.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC--------Ccccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS--------SGFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~--------~gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      .-|+|+|...+|||+|+++|++..        .++.+.. ......+|+=+-.......   .....+.|+||+|.... 
T Consensus         3 ~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~---~~~~~i~~iDtPG~~~~-   78 (195)
T cd01884           3 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYE---TANRHYAHVDCPGHADY-   78 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEec---CCCeEEEEEECcCHHHH-
Confidence            459999999999999999998642        1111111 1111133443333222211   12356889999996321 


Q ss_pred             cCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          143 QTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       143 ~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                          ....+.+++..=.-++|......+..+....+
T Consensus        79 ----~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~  110 (195)
T cd01884          79 ----IKNMITGAAQMDGAILVVSATDGPMPQTREHL  110 (195)
T ss_pred             ----HHHHHHHhhhCCEEEEEEECCCCCcHHHHHHH
Confidence                12335555544445666666555555444433

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.

>cd04114 Rab30 Rab30 subfamily

Probab=95.89  E-value=0.018  Score=55.45  Aligned_cols=63  Identities=17%  Similarity=0.298  Sum_probs=39.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|+|+|+.++|||+|++.|.+..  |.-+.   ..|.|+=.-...+   ..+|..+.+.++||.|..
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~---~~~~~~~~~~~~D~~g~~   67 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGL--FPPGQ---GATIGVDFMIKTV---EIKGEKIKLQIWDTAGQE   67 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCC--CCCCC---CCceeeEEEEEEE---EECCEEEEEEEEECCCcH
Confidence            356789999999999999999998643  32221   1233321100011   123445678899999953

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.

>cd04176 Rap2 Rap2 subgroup

Probab=95.87  E-value=0.016  Score=55.56  Aligned_cols=57  Identities=25%  Similarity=0.374  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|..++|||+|++++++..  |.-  ...|++.......  +   ..+|..+.+-|+||.|..
T Consensus         4 i~i~G~~~vGKTsl~~~~~~~~--~~~--~~~~t~~~~~~~~--~---~~~~~~~~l~i~Dt~G~~   60 (163)
T cd04176           4 VVVLGSGGVGKSALTVQFVSGT--FIE--KYDPTIEDFYRKE--I---EVDSSPSVLEILDTAGTE   60 (163)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC--CCCCchhheEEEE--E---EECCEEEEEEEEECCCcc
Confidence            7899999999999999999754  431  2223222232221  1   124555678899999964

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

>cd01900 YchF YchF subfamily

Probab=95.80  E-value=0.013  Score=62.47  Aligned_cols=63  Identities=19%  Similarity=0.265  Sum_probs=39.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccc----cCCCcccceEEeeccccc---cccCCCC---ceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVA----STHRPCTKGLWLWSAPLK---RTALDGT---EYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g----~~~~~~TkGIWmw~~p~~---~~~~~g~---~~~vvlLDTEGl~  139 (716)
                      |+|+|.+.+|||+|+|.|.|...  .++    .|+.| ..|++.|..+-.   ....++.   ...+.|+||+|+-
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~--~~~n~pftTi~p-~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~   73 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGA--EAANYPFCTIEP-NVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLV   73 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCC--ccccccccchhc-eeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcC
Confidence            68999999999999999998762  332    23333 347776644310   0000111   1358899999983

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.80  E-value=0.011  Score=55.40  Aligned_cols=22  Identities=23%  Similarity=0.373  Sum_probs=20.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |+|+|..++|||+|+|+|.|..
T Consensus         3 v~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         3 IMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            6899999999999999999875

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.

>PLN03110 Rab GTPase; Provisional

Probab=95.80  E-value=0.016  Score=59.25  Aligned_cols=61  Identities=21%  Similarity=0.287  Sum_probs=42.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ...=|.|+|+.++|||+|+++|.+..  |...   ...|.|+-.+...+..   +|..+.+-|+||.|.
T Consensus        11 ~~~Ki~ivG~~~vGKStLi~~l~~~~--~~~~---~~~t~g~~~~~~~v~~---~~~~~~l~l~Dt~G~   71 (216)
T PLN03110         11 YLFKIVLIGDSGVGKSNILSRFTRNE--FCLE---SKSTIGVEFATRTLQV---EGKTVKAQIWDTAGQ   71 (216)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCC--CCCC---CCCceeEEEEEEEEEE---CCEEEEEEEEECCCc
Confidence            34458999999999999999999865  5432   2346666444333322   355578899999995

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=95.80  E-value=0.016  Score=59.57  Aligned_cols=65  Identities=23%  Similarity=0.308  Sum_probs=41.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC---CccccccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS---SGFQVAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~---~gF~~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      =|-|+|..+.|||+|.|.|+...   ++-.+++. .-|.|.-|-.-...+   ..+|-+..+-++||+|+|+
T Consensus        48 NIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvi---eE~gVklkltviDTPGfGD  116 (336)
T KOG1547|consen   48 NIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVI---EEKGVKLKLTVIDTPGFGD  116 (336)
T ss_pred             EEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeee---eecceEEEEEEecCCCccc
Confidence            36788999999999999999542   12222222 223444444433332   2356678889999999974

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=95.79  E-value=0.046  Score=65.92  Aligned_cols=56  Identities=30%  Similarity=0.428  Sum_probs=37.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCccc----ceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCT----KGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~T----kGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+|+|..++|||+|+|+|+|....+  .+...++|    .+.|.|         +|  ..+.|+||.|+.
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~--v~~~~gtT~d~~~~~~~~---------~~--~~~~liDTaG~~  509 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAV--VNDLAGTTRDPVDEIVEI---------DG--EDWLFIDTAGIK  509 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccc--cCCCCCCCcCcceeEEEE---------CC--CEEEEEECCCcc
Confidence            3468999999999999999999886322  11111222    234444         23  246689999974

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.75  E-value=4.3  Score=46.01  Aligned_cols=28  Identities=14%  Similarity=0.172  Sum_probs=17.1

Q ss_pred             HhhcHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          519 KYRSIEDNMKLLKKQLEDSERYKSEYLK  546 (716)
Q Consensus       519 k~~s~e~e~~~l~k~~e~~~~~~~~~~k  546 (716)
                      ..+-++.+++.+++++++.+..++.+++
T Consensus       172 ~~~fl~~ql~~~~~~l~~ae~~l~~fr~  199 (444)
T TIGR03017       172 AALWFVQQIAALREDLARAQSKLSAYQQ  199 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666666666665555544

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.74  E-value=3.7  Score=44.71  Aligned_cols=60  Identities=13%  Similarity=0.179  Sum_probs=38.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHH
Q 005055          539 RYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWK  598 (716)
Q Consensus       539 ~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~  598 (716)
                      ++.+.....+++++..|+...+.+..+.+.+..-.-.+.+++..+..++..+++...+..
T Consensus       140 kllegLk~~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~  199 (312)
T smart00787      140 KLLEGLKEGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELE  199 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            455555556666666666666666666666666666666666666666666666655543

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>cd04132 Rho4_like Rho4-like subfamily

Probab=95.73  E-value=0.019  Score=56.50  Aligned_cols=58  Identities=21%  Similarity=0.180  Sum_probs=38.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |.-.   ...|.|.-.... +  ..+++..+.+.+.||.|..
T Consensus         3 i~vvG~~~vGKTsli~~l~~~~--~~~~---~~~t~~~~~~~~-i--~~~~~~~~~l~i~Dt~G~~   60 (187)
T cd04132           3 IVVVGDGGCGKTCLLIVYSQGK--FPEE---YVPTVFENYVTN-I--QGPNGKIIELALWDTAGQE   60 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCCC---CCCeeeeeeEEE-E--EecCCcEEEEEEEECCCch
Confidence            7899999999999999999765  5321   122333322111 1  1223566889999999953

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.

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=95.73  E-value=0.78  Score=49.70  Aligned_cols=95  Identities=15%  Similarity=0.156  Sum_probs=62.1

Q ss_pred             hhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-----HHHHHHHHHHHHHHHHHH
Q 005055          574 ISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAE-----ARLAAAREQALSAQEEVE  648 (716)
Q Consensus       574 ~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~e-----erl~~~~~ql~~ak~E~~  648 (716)
                      .+|..-+.-.+++-..++.|..+++.++.++-.+-|.    |...++..+.......     ..=..+-.|+..++..++
T Consensus        68 ~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~Kl----LR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~  143 (319)
T PF09789_consen   68 KNLAQLLSESREQNKKLKEEVEELRQKLNEAQGDIKL----LREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIE  143 (319)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHH----HHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHH
Confidence            4444555566666666777777777777776555444    3444444443311111     334567788888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          649 EWKRKYGVAVREAKAALEKAAIVQE  673 (716)
Q Consensus       649 ~w~~kY~~~~~~~Ka~leq~~~~~~  673 (716)
                      .|-++|+.++ ..|..+-.+-.+|+
T Consensus       144 qLe~d~qs~l-DEkeEl~~ERD~yk  167 (319)
T PF09789_consen  144 QLERDLQSLL-DEKEELVTERDAYK  167 (319)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHH
Confidence            8888888888 88888888888876

>CHL00189 infB translation initiation factor 2; Provisional

Probab=95.73  E-value=0.027  Score=67.58  Aligned_cols=98  Identities=15%  Similarity=0.288  Sum_probs=55.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchh
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYST  149 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~  149 (716)
                      +..+|+|+|....|||+|+|+|.+..  |..+. ....|..+..+..++.   .++..+.+.|+||+|...+.     .+
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~--~~~~e-~~GiTq~i~~~~v~~~---~~~~~~kItfiDTPGhe~F~-----~m  311 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQ--IAQKE-AGGITQKIGAYEVEFE---YKDENQKIVFLDTPGHEAFS-----SM  311 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcc--Ccccc-CCccccccceEEEEEE---ecCCceEEEEEECCcHHHHH-----HH
Confidence            34579999999999999999998765  33221 1112222222222221   12345789999999964321     22


Q ss_pred             HHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          150 QIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       150 ~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      +...+...=.-++||.....+..+..+.+
T Consensus       312 r~rg~~~aDiaILVVDA~dGv~~QT~E~I  340 (742)
T CHL00189        312 RSRGANVTDIAILIIAADDGVKPQTIEAI  340 (742)
T ss_pred             HHHHHHHCCEEEEEEECcCCCChhhHHHH
Confidence            33333332234677776655555555544

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=95.73  E-value=0.013  Score=64.97  Aligned_cols=56  Identities=34%  Similarity=0.422  Sum_probs=36.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCc----cccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSG----FQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~g----F~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|..++|||+|+|.|++...+    +.+++. -.+|.++ .+. |+     ++   .+.|+||+|+.
T Consensus       156 ~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~-pgtT~~~-~~~-~~-----~~---~~~l~DtPG~~  215 (360)
T TIGR03597       156 DVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPF-PGTTLDL-IEI-PL-----DD---GHSLYDTPGII  215 (360)
T ss_pred             eEEEECCCCCCHHHHHHHHHhhccCCcceeeecCC-CCeEeeE-EEE-Ee-----CC---CCEEEECCCCC
Confidence            5889999999999999999986432    333322 2345553 221 11     11   25789999985

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=95.72  E-value=0.015  Score=66.67  Aligned_cols=54  Identities=22%  Similarity=0.318  Sum_probs=38.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ++-|+++|.+.+|||+|+|.|.+..  ..+++    |..| ..|++.+.           ...+.|.||+|+
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~ak--pkIadypfTTl~P-~lGvv~~~-----------~~~f~laDtPGl  216 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAK--PKIADYPFTTLVP-NLGVVQAG-----------DTRFTVADVPGL  216 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCC--ccccccCcccccc-eEEEEEEC-----------CeEEEEEECCCC
Confidence            5679999999999999999999864  23322    2222 34555431           246889999998

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=95.71  E-value=5.5  Score=47.27  Aligned_cols=56  Identities=20%  Similarity=0.249  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHH---HHHHHHHHHHHH
Q 005055          645 EEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREE---FSSTLAEKVLSY  701 (716)
Q Consensus       645 ~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~---~~~~~~~~~~~~  701 (716)
                      +-..+-...|-.+- +.|+.+.-+...-....++.+++=..+..+   ++..++.|+-++
T Consensus       167 ~QL~Elq~~Fv~lt-ne~~elt~~lq~Eq~~~keL~~kl~~l~~~l~~~~e~le~K~qE~  225 (617)
T PF15070_consen  167 EQLAELQDAFVKLT-NENMELTSALQSEQHVKKELQKKLGELQEKLHNLKEKLELKSQEA  225 (617)
T ss_pred             HHHHHHHHHHHHHH-HhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            33444444555555 778777777777777676666666666543   445666665443

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=95.70  E-value=7.6  Score=47.51  Aligned_cols=32  Identities=19%  Similarity=0.355  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHH
Q 005055          501 LVKRLIDQIGSERSSLMLKYRSIEDNMKLLKK  532 (716)
Q Consensus       501 ~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k  532 (716)
                      .++.-+....-+...++++.+++...++++.-
T Consensus       319 tdr~kteeL~eEnstLq~q~eqL~~~~ellq~  350 (1195)
T KOG4643|consen  319 TDRHKTEELHEENSTLQVQKEQLDGQMELLQI  350 (1195)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhhhhhHhhh
Confidence            44445555555566666666666555555544

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=95.69  E-value=0.024  Score=54.05  Aligned_cols=53  Identities=21%  Similarity=0.172  Sum_probs=35.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|..++|||+|+|++.+..  +.-    ...|.|+=.-...       ...+.+.+.||+|..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~--~~~----~~~t~~~~~~~~~-------~~~~~~~i~D~~G~~   54 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE--VVT----TIPTIGFNVETVE-------YKNVSFTVWDVGGQD   54 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC--CCC----CCCCcCcceEEEE-------ECCEEEEEEECCCCh
Confidence            6899999999999999999886  321    1234443221111       113679999999964

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

>cd04154 Arl2 Arl2 subfamily

Probab=95.69  E-value=0.016  Score=56.44  Aligned_cols=54  Identities=28%  Similarity=0.410  Sum_probs=36.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|+.++|||+|+|+|.+..  |.   .. ..|.|+-.....     .+  .+.+.++||.|..
T Consensus        16 kv~ivG~~~~GKTsL~~~l~~~~--~~---~~-~~t~g~~~~~~~-----~~--~~~l~l~D~~G~~   69 (173)
T cd04154          16 RILILGLDNAGKTTILKKLLGED--ID---TI-SPTLGFQIKTLE-----YE--GYKLNIWDVGGQK   69 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHccCC--CC---Cc-CCccccceEEEE-----EC--CEEEEEEECCCCH
Confidence            46799999999999999999873  32   12 235563222111     12  3678999999964

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.

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=95.68  E-value=0.0029  Score=77.45  Aligned_cols=182  Identities=19%  Similarity=0.296  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK---RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKT  586 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k---~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~  586 (716)
                      +..+..+.....-++.++.-|..++++.+.......+   +++..+.++++..++.......|..+...++..+..+.++
T Consensus       200 er~~~el~~~k~kL~~E~~eL~~qLee~e~~~~~l~r~k~~L~~qLeelk~~leeEtr~k~~L~~~l~~le~e~~~L~eq  279 (859)
T PF01576_consen  200 ERQRNELTEQKAKLQSENSELTRQLEEAESQLSQLQREKSSLESQLEELKRQLEEETRAKQALEKQLRQLEHELEQLREQ  279 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            5555566666666666666677776666655444433   6777888887777777777767777777666666666555


Q ss_pred             HH--------------HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          587 VD--------------SLKNEISDWKRKYDQVLTK----QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       587 le--------------~~k~e~~e~~r~y~~~i~~----~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      ++              .+..++.+|+++|+.-+..    .-..+..+...|.+++..+..+..++..+++.......|++
T Consensus       280 leeE~e~k~~l~~qlsk~~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~~~~~~~~LeK~k~rL~~Ele  359 (859)
T PF01576_consen  280 LEEEEEAKSELERQLSKLNAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEEANAKVSSLEKTKKRLQGELE  359 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            54              5677888999999987433    33345678888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH
Q 005055          649 EWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS  692 (716)
Q Consensus       649 ~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~  692 (716)
                      +-...-+..- ...+.|++....+++.+.+...+-+.+..+.-.
T Consensus       360 Dl~~eLe~~~-~~~~~LeKKqr~fDk~l~e~k~~~~~~~~e~d~  402 (859)
T PF01576_consen  360 DLTSELEKAQ-AAAAELEKKQRKFDKQLAEWKAKVEELQAERDA  402 (859)
T ss_dssp             --------------------------------------------
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            7777666665 566777777777888777777776666555433

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=95.68  E-value=6.1  Score=46.32  Aligned_cols=101  Identities=21%  Similarity=0.201  Sum_probs=55.0

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHH----------------------HHHH
Q 005055          540 YKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNE----------------------ISDW  597 (716)
Q Consensus       540 ~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e----------------------~~e~  597 (716)
                      -+++.++-+.+.|..++.........++.++.-+..++.+...+.-.++.+++.                      ..++
T Consensus       513 ~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qat~d~a~~Dlqk~nrlkQdear~~~~~lvqqv~dL  592 (961)
T KOG4673|consen  513 DKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQATNDEARSDLQKENRLKQDEARERESMLVQQVEDL  592 (961)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhhHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence            344556677788887766555555555554444444444444444444333331                      1111


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q 005055          598 KRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQA  640 (716)
Q Consensus       598 ~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql  640 (716)
                      +......=+..-.-.+-+..+|.+|+.|+..+|-||.++.-++
T Consensus       593 R~~L~~~Eq~aarrEd~~R~Ei~~LqrRlqaaE~R~eel~q~v  635 (961)
T KOG4673|consen  593 RQTLSKKEQQAARREDMFRGEIEDLQRRLQAAERRCEELIQQV  635 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            1111111111111246678899999999999999988776544

>cd04147 Ras_dva Ras-dva subfamily

Probab=95.68  E-value=0.019  Score=57.59  Aligned_cols=55  Identities=22%  Similarity=0.312  Sum_probs=35.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccc--ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQV--ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~--g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.-  .++......+.+.+         +|..+.+-++||.|..
T Consensus         2 v~vvG~~~vGKTsll~~~~~~~--~~~~~~~t~~~~~~~~~~~---------~~~~~~l~i~D~~G~~   58 (198)
T cd04147           2 LVFMGAAGVGKTALIQRFLYDT--FEPKYRRTVEEMHRKEYEV---------GGVSLTLDILDTSGSY   58 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCccCCCchhhheeEEEEE---------CCEEEEEEEEECCCch
Confidence            6899999999999999999865  432  11211111112222         2444778899999964

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.

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=95.67  E-value=2.4  Score=50.73  Aligned_cols=145  Identities=18%  Similarity=0.168  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDS  589 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~  589 (716)
                      +.+....+..+.....+.+.|...+..+.+.    ...++.....|+..+.+++.+=+.+-..|++||++--+|-+++..
T Consensus        40 ~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~----~~~~e~~~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs~  115 (717)
T PF09730_consen   40 ENELKQLRQELSNVQAENERLSQLNQELRKE----CEDLELERKRLREEIKEYKFREARLLQDYSELEEENISLQKQVSV  115 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence            4444455555555555555555544333322    235667777778888888888888999999999998899999888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          590 LKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAA  669 (716)
Q Consensus       590 ~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~  669 (716)
                      +|..--|+. ....-|....-..+-+.++++++-.--..+|-+   ++++|++.|.|-+            +|.+|-++.
T Consensus       116 Lk~sQvefE-~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~q---leEALesl~~ERe------------qk~~LrkEL  179 (717)
T PF09730_consen  116 LKQSQVEFE-GLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQ---LEEALESLKSERE------------QKNALRKEL  179 (717)
T ss_pred             HHHhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH------------HHHHHHHHH
Confidence            887644443 112224333333455666666555444455544   4667777777766            888888888


Q ss_pred             HHHHH
Q 005055          670 IVQER  674 (716)
Q Consensus       670 ~~~~~  674 (716)
                      ..|-.
T Consensus       180 ~~~~~  184 (717)
T PF09730_consen  180 DQHLN  184 (717)
T ss_pred             HHhcC
Confidence            77655

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>cd04148 RGK RGK subfamily

Probab=95.64  E-value=0.019  Score=58.88  Aligned_cols=57  Identities=19%  Similarity=0.291  Sum_probs=36.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce--EEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG--LWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG--IWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|++.+..  |.....  ..|.|  .......     .++..+.+.++||.|.+
T Consensus         3 I~lvG~~gvGKTsLi~~~~~~~--~~~~~~--~~t~~~~~~~~~i~-----~~~~~~~l~i~Dt~G~~   61 (221)
T cd04148           3 VVMLGSPGVGKSSLASQFTSGE--YDDHAY--DASGDDDTYERTVS-----VDGEESTLVVIDHWEQE   61 (221)
T ss_pred             EEEECCCCCcHHHHHHHHhcCC--cCccCc--CCCccccceEEEEE-----ECCEEEEEEEEeCCCcc
Confidence            7899999999999999998654  431111  12222  2222211     23556789999999975

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=95.62  E-value=0.043  Score=60.05  Aligned_cols=57  Identities=19%  Similarity=0.246  Sum_probs=39.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ++=|+|+|.+.+|||+|+|.|.+..  ..+++   |+...+-|+.-+.        +  ...+.|.||+|+.
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~--~~va~y~fTT~~p~ig~v~~~--------~--~~~~~i~D~PGli  216 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAK--PKIADYPFTTLVPNLGVVRVD--------D--GRSFVIADIPGLI  216 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCC--ccccCCCCCccCCEEEEEEeC--------C--ceEEEEEeCCCcc
Confidence            5679999999999999999999764  22221   2223355665431        1  2568899999983

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.

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=95.61  E-value=8.9  Score=47.71  Aligned_cols=79  Identities=19%  Similarity=0.245  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHHHhh-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 005055          608 QKAMEDQVCSEIEVLKSR-------STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQ  680 (716)
Q Consensus       608 ~k~~~~~~~~~i~~l~~r-------~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q  680 (716)
                      .+...+-.++++..|.++       +..+.++|.++++.++.-+-+..+|+-+.+.+= ......++.....++.....+
T Consensus       498 ~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k-~e~~~~~k~l~~~~~e~~~~~  576 (1293)
T KOG0996|consen  498 ARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLK-QELKEKEKELPKLRKEERNLK  576 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHhHHHHHHHHHHHH
Confidence            333344455555555544       555555566666666666666666666665543 233333444444444333333


Q ss_pred             hhHHHHH
Q 005055          681 QREDVLR  687 (716)
Q Consensus       681 ~~e~~~~  687 (716)
                      ...-++|
T Consensus       577 ~~~~~~r  583 (1293)
T KOG0996|consen  577 SQLNKLR  583 (1293)
T ss_pred             HHHHHHH
Confidence            3333333

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.60  E-value=0.012  Score=60.71  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.+||||||||.|-|-.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            79999999999999999987654

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=95.60  E-value=0.034  Score=62.82  Aligned_cols=56  Identities=23%  Similarity=0.294  Sum_probs=39.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ++-|+++|.+.+|||+|||.|.+..  ..+++    |..| +-|++.+.        +  ...++|.||+|+.
T Consensus       158 ~adVglVG~pNaGKSTLLn~Lt~ak--~kIa~ypfTTl~P-nlG~v~~~--------~--~~~~~laD~PGli  217 (424)
T PRK12297        158 LADVGLVGFPNVGKSTLLSVVSNAK--PKIANYHFTTLVP-NLGVVETD--------D--GRSFVMADIPGLI  217 (424)
T ss_pred             cCcEEEEcCCCCCHHHHHHHHHcCC--CccccCCcceece-EEEEEEEe--------C--CceEEEEECCCCc
Confidence            5689999999999999999999865  22322    2222 44655442        1  2568999999984

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=95.59  E-value=0.021  Score=55.94  Aligned_cols=57  Identities=25%  Similarity=0.214  Sum_probs=37.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++.+..  |.-  .. ..|.|--.. ..+   ..+|..+.+.|+||.|..
T Consensus         5 i~vvG~~~vGKTsL~~~~~~~~--f~~--~~-~~t~~~~~~-~~~---~~~~~~~~l~i~Dt~G~~   61 (172)
T cd04141           5 IVMLGAGGVGKSAVTMQFISHS--FPD--YH-DPTIEDAYK-QQA---RIDNEPALLDILDTAGQA   61 (172)
T ss_pred             EEEECCCCCcHHHHHHHHHhCC--CCC--Cc-CCcccceEE-EEE---EECCEEEEEEEEeCCCch
Confidence            7899999999999999999765  631  11 223342111 111   124666889999999964

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=95.58  E-value=0.021  Score=62.12  Aligned_cols=62  Identities=26%  Similarity=0.418  Sum_probs=40.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccc----cCCCcccceEEeecc--ccccc----c------CCC-CceeEEEEeCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVA----STHRPCTKGLWLWSA--PLKRT----A------LDG-TEYNLLLLDSE  136 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g----~~~~~~TkGIWmw~~--p~~~~----~------~~g-~~~~vvlLDTE  136 (716)
                      |+|+|.+++|||+|+|+|.+..  +.++    .|..| +.|+-.+..  |..+.    .      .+| ..+.+-|+||.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~--~~~~~~pftT~~p-~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~a   77 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLAD--VEIANYPFTTIDP-NVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVA   77 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCC--CcccCCCCccccc-eeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECC
Confidence            6899999999999999999875  3332    23333 557655533  22110    1      123 33679999999


Q ss_pred             CC
Q 005055          137 GI  138 (716)
Q Consensus       137 Gl  138 (716)
                      |+
T Consensus        78 Gl   79 (318)
T cd01899          78 GL   79 (318)
T ss_pred             CC
Confidence            98

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.

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=95.58  E-value=3.2  Score=42.43  Aligned_cols=45  Identities=16%  Similarity=0.155  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVR  659 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~  659 (716)
                      .++++.-|+..+...+=++.+++++|++-..|.++..+=+|.|++
T Consensus       159 ~~~e~~aLqa~lkk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI~  203 (207)
T PF05010_consen  159 HQAELLALQASLKKEEMKVQSLEESLEQKTKENEELTKICDELIS  203 (207)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455666666666667776666676666666666664

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PRK13796 GTPase YqeH; Provisional

Probab=95.58  E-value=0.017  Score=64.09  Aligned_cols=55  Identities=31%  Similarity=0.376  Sum_probs=35.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcc----ccccCCCcccceE-EeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGF----QVASTHRPCTKGL-WLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF----~~g~~~~~~TkGI-Wmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|.++.|||+|+|.|++...|-    .+++. -.+|.++ |+   |+    .+|    ..|+||+|+-
T Consensus       162 ~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~-pGTT~~~~~~---~l----~~~----~~l~DTPGi~  221 (365)
T PRK13796        162 DVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRF-PGTTLDKIEI---PL----DDG----SFLYDTPGII  221 (365)
T ss_pred             eEEEEcCCCCcHHHHHHHHHhhccCccceEEecCC-CCccceeEEE---Ec----CCC----cEEEECCCcc
Confidence            46789999999999999999754332    22222 2245553 32   22    122    4789999984

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=95.52  E-value=0.036  Score=58.96  Aligned_cols=92  Identities=14%  Similarity=0.249  Sum_probs=49.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCc-cccccC----------CCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSG-FQVAST----------HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~g-F~~g~~----------~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      |+|+|..++|||+|.|.|+..... -.+|..          ..-..+||=+-.......   ..++.+.|+||+|...+.
T Consensus         2 v~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~---~~~~~i~liDTPG~~df~   78 (270)
T cd01886           2 IGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCF---WKDHRINIIDTPGHVDFT   78 (270)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEE---ECCEEEEEEECCCcHHHH
Confidence            789999999999999999843210 011110          011223443332221111   123678999999964321


Q ss_pred             cCCcchhHHHHHhhhccceEEEccCCCCchH
Q 005055          143 QTGTYSTQIFSLAVLLSSMFIYNQMGGIDES  173 (716)
Q Consensus       143 ~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~  173 (716)
                           ..+.-++...=.-++|......+...
T Consensus        79 -----~~~~~~l~~aD~ailVVDa~~g~~~~  104 (270)
T cd01886          79 -----IEVERSLRVLDGAVAVFDAVAGVEPQ  104 (270)
T ss_pred             -----HHHHHHHHHcCEEEEEEECCCCCCHH
Confidence                 12344555444456666665555443

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=95.52  E-value=0.021  Score=57.99  Aligned_cols=60  Identities=15%  Similarity=0.148  Sum_probs=41.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|+|+|+.++|||+|+|+++...  |.-   ....|.|+-+....+.   .++..+.+-+.||.|..
T Consensus        10 ~kv~liG~~g~GKTtLi~~~~~~~--~~~---~~~~t~~~~~~~~~~~---~~~~~i~i~~~Dt~g~~   69 (215)
T PTZ00132         10 FKLILVGDGGVGKTTFVKRHLTGE--FEK---KYIPTLGVEVHPLKFY---TNCGPICFNVWDTAGQE   69 (215)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCC---CCCCccceEEEEEEEE---ECCeEEEEEEEECCCch
Confidence            458999999999999998766433  322   1234667666554442   24556889999999853

>cd04167 Snu114p Snu114p subfamily

Probab=95.52  E-value=0.045  Score=55.71  Aligned_cols=22  Identities=27%  Similarity=0.628  Sum_probs=19.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |+|+|..++|||+|+++|++..
T Consensus         3 v~iiG~~~~GKTtL~~~l~~~~   24 (213)
T cd04167           3 VAIAGHLHHGKTSLLDMLIEQT   24 (213)
T ss_pred             EEEEcCCCCCHHHHHHHHHHhc
Confidence            7899999999999999998654

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=95.51  E-value=0.026  Score=55.24  Aligned_cols=58  Identities=24%  Similarity=0.364  Sum_probs=39.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|+|++++..  |.-.   -..|.|.-....-+   ..+|..+.+-+.||.|..
T Consensus         3 i~ivG~~~vGKTsli~~~~~~~--f~~~---~~~t~~~~~~~~~~---~~~~~~~~l~i~Dt~G~~   60 (170)
T cd04108           3 VIVVGDLSVGKTCLINRFCKDV--FDKN---YKATIGVDFEMERF---EILGVPFSLQLWDTAGQE   60 (170)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCCC---CCCceeeEEEEEEE---EECCEEEEEEEEeCCChH
Confidence            6799999999999999999875  6321   13355544332211   124566789999999964

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

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=95.50  E-value=5.6  Score=44.67  Aligned_cols=89  Identities=16%  Similarity=0.186  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 005055          556 KKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAA  635 (716)
Q Consensus       556 k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~  635 (716)
                      .+.++.+......|......++.+    ..++.++..+-.+=+++....+..+++...++++++..-++++.++...=++
T Consensus       160 ~~~i~~l~~~~~~l~~~~~~iaae----q~~l~~~~~eq~~q~~kl~~~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~~  235 (420)
T COG4942         160 AERIDALKATLKQLAAVRAEIAAE----QAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESR  235 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            445555555544444444444433    3344444444444455666666677777777777777777776666666555


Q ss_pred             HHHHHHHHHHHHH
Q 005055          636 AREQALSAQEEVE  648 (716)
Q Consensus       636 ~~~ql~~ak~E~~  648 (716)
                      |+..+.++..+++
T Consensus       236 L~~~Ias~e~~aA  248 (420)
T COG4942         236 LKNEIASAEAAAA  248 (420)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554444

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=95.48  E-value=7  Score=45.64  Aligned_cols=118  Identities=23%  Similarity=0.222  Sum_probs=74.8

Q ss_pred             HHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 005055          569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED---QVCSEIEVLKSRSTAAEARLAAAREQALSAQE  645 (716)
Q Consensus       569 l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~---~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~  645 (716)
                      .+.+.....+++..-...|++++.|...++..|..+++.+.....   ...+....-..+...+-..+..+.+.+++++.
T Consensus       114 ~k~ele~~~~q~~~~~~eL~~~k~EL~~lr~e~~~~~~~k~~A~~~aeea~~~a~~~~~kve~L~~Ei~~lke~l~~~~~  193 (522)
T PF05701_consen  114 WKAELESAREQYASAVAELDSVKQELEKLRQELASALDAKNAALKQAEEAVSAAEENEEKVEELSKEIIALKESLESAKL  193 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666677788999999999999999999999999998765433222   22222222223344555555555555555433


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHH
Q 005055          646 EVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEF  690 (716)
Q Consensus       646 E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~  690 (716)
                      ...+=.   +..+ ++-+..++.+..|++.+++.+.+-..|+.++
T Consensus       194 a~~eAe---ee~~-~~~~~~~~~~~~~~~~leeae~~l~~L~~e~  234 (522)
T PF05701_consen  194 AHIEAE---EERI-EIAAEREQDAEEWEKELEEAEEELEELKEEL  234 (522)
T ss_pred             HHHHHH---HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            222111   1111 2334566778888888888888888888887

Several sequences in this family are described as being myosin heavy chain-like.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=95.44  E-value=0.03  Score=61.81  Aligned_cols=64  Identities=20%  Similarity=0.240  Sum_probs=40.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccc----cCCCcccceEEeecccccc-----ccCCC-CceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVA----STHRPCTKGLWLWSAPLKR-----TALDG-TEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g----~~~~~~TkGIWmw~~p~~~-----~~~~g-~~~~vvlLDTEGl~  139 (716)
                      .|+|+|.+.+|||||+|.|.|..  -.++    .|+.| ..|+.-+..+-..     ..|.. -...+.|+||+|+-
T Consensus         4 ~vgIVG~PNvGKSTLfnaLt~~~--~~v~nypftTi~p-~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~   77 (364)
T PRK09601          4 KCGIVGLPNVGKSTLFNALTKAG--AEAANYPFCTIEP-NVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLV   77 (364)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--Ceecccccccccc-eEEEEEeccccchhhHHhcCCccccCceEEEEECCCCC
Confidence            48999999999999999999875  1222    23333 4566665443100     01110 01358999999983

>CHL00071 tufA elongation factor Tu

Probab=95.42  E-value=0.054  Score=61.03  Aligned_cols=104  Identities=13%  Similarity=0.145  Sum_probs=56.0

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCC------ccccc---cCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSS------GFQVA---STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~------gF~~g---~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..|..-|+|+|...+|||+|+|+|++...      ++...   .+..-..+||=+-.......   .+...+.|+||+|.
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~---~~~~~~~~iDtPGh   85 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYE---TENRHYAHVDCPGH   85 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEc---cCCeEEEEEECCCh
Confidence            34566699999999999999999997531      11100   00111124544433222211   12356889999995


Q ss_pred             cccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhH
Q 005055          139 DAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLS  179 (716)
Q Consensus       139 ~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~  179 (716)
                      ..     -....+.+++..=.-++|......+..++.+.+.
T Consensus        86 ~~-----~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~  121 (409)
T CHL00071         86 AD-----YVKNMITGAAQMDGAILVVSAADGPMPQTKEHIL  121 (409)
T ss_pred             HH-----HHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHH
Confidence            31     1233344554433345555555555555555443

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=95.41  E-value=0.045  Score=56.53  Aligned_cols=94  Identities=18%  Similarity=0.291  Sum_probs=51.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccc---c------CCCcccceEEeeccccccc-------cCCCCceeEEEEeCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVA---S------THRPCTKGLWLWSAPLKRT-------ALDGTEYNLLLLDSEG  137 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g---~------~~~~~TkGIWmw~~p~~~~-------~~~g~~~~vvlLDTEG  137 (716)
                      |+|+|...+|||+|++.|+.....+.-.   .      ...-..+||=|-+.++...       ..++..+.+.|+||+|
T Consensus         3 vaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG   82 (222)
T cd01885           3 ICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPG   82 (222)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCCC
Confidence            7999999999999999998654222110   0      0001123433333221110       1235578899999999


Q ss_pred             CcccccCCcchhHHHHHhhhccceEEEccCCCCch
Q 005055          138 IDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE  172 (716)
Q Consensus       138 l~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e  172 (716)
                      ...+.     .....++...=.-++||.....+..
T Consensus        83 ~~~f~-----~~~~~~l~~aD~~ilVvD~~~g~~~  112 (222)
T cd01885          83 HVDFS-----SEVTAALRLCDGALVVVDAVEGVCV  112 (222)
T ss_pred             ccccH-----HHHHHHHHhcCeeEEEEECCCCCCH
Confidence            64321     2233344433344677776655443

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

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=95.40  E-value=3.4  Score=41.49  Aligned_cols=150  Identities=19%  Similarity=0.283  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDK---KKLADDYTSRINNLQGENISLREKSSSLSKT  586 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dl---k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~  586 (716)
                      ...+.++..+....+.+++.+..++.+.....+.-.+.|++.+..|   .-.+|....+...-+.+|..|++....+...
T Consensus        45 er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~eEVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~n  124 (205)
T KOG1003|consen   45 ERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYEEVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSN  124 (205)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhH
Confidence            3445667777788888999999999999988888889999999988   6677777777788889999999998888887


Q ss_pred             HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          587 VDSLKNEISDW---KRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKA  663 (716)
Q Consensus       587 le~~k~e~~e~---~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka  663 (716)
                      |.+...--..+   .-.|+..|.-       +...+-+...|.-.++-+.+.|+++.+-......+-+.||..    ++.
T Consensus       125 lk~l~~~ee~~~q~~d~~e~~ik~-------ltdKLkEaE~rAE~aERsVakLeke~DdlE~kl~~~k~ky~~----~~~  193 (205)
T KOG1003|consen  125 LKSLSAKEEKLEQKEEKYEEELKE-------LTDKLKEAETRAEFAERRVAKLEKERDDLEEKLEEAKEKYEE----AKK  193 (205)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHH-------HHHHHhhhhhhHHHHHHHHHHHcccHHHHHHhhHHHHHHHHH----HHH
Confidence            77765543322   2233333322       344444445555555555555555555555555555555543    344


Q ss_pred             HHHHHHH
Q 005055          664 ALEKAAI  670 (716)
Q Consensus       664 ~leq~~~  670 (716)
                      .|++...
T Consensus       194 eLD~~~~  200 (205)
T KOG1003|consen  194 ELDETLQ  200 (205)
T ss_pred             HHHHHHH
Confidence            5555443

>cd04144 Ras2 Ras2 subfamily

Probab=95.36  E-value=0.02  Score=56.97  Aligned_cols=56  Identities=27%  Similarity=0.216  Sum_probs=36.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|..++|||+|+|+|.+..  |.-  .. +.|.|.-.... +   ..+|..+.+-++||.|.
T Consensus         2 i~ivG~~~vGKTsli~~l~~~~--f~~--~~-~~t~~~~~~~~-~---~~~~~~~~l~i~Dt~G~   57 (190)
T cd04144           2 LVVLGDGGVGKTALTIQLCLNH--FVE--TY-DPTIEDSYRKQ-V---VVDGQPCMLEVLDTAGQ   57 (190)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCc--cC-CCchHhhEEEE-E---EECCEEEEEEEEECCCc
Confidence            6799999999999999998654  532  11 22333222111 1   12455677889999995

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.

>cd04169 RF3 RF3 subfamily

Probab=95.35  E-value=0.063  Score=56.98  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.|+|+|..++|||+|+|.|+..
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~   25 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLF   25 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh
Confidence            45999999999999999999854

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=95.35  E-value=0.017  Score=61.86  Aligned_cols=57  Identities=23%  Similarity=0.382  Sum_probs=35.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc-------CCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS-------THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~-------~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +..++|..+.|||+|+|+|++.. ...+|.       |. -+|.-.=|..-|.     +|     +++||+|+.++
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~-~~~t~eIS~~~~rGk-HTTt~~~l~~l~~-----gG-----~iiDTPGf~~~  229 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPEL-NQKTGEISEKLGRGR-HTTTHVELFPLPG-----GG-----WIIDTPGFRSL  229 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchh-hhhhhhhcccCCCCC-CccceEEEEEcCC-----CC-----EEEeCCCCCcc
Confidence            45589999999999999999742 122221       21 1344555543331     23     67899998543

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.34  E-value=3.5  Score=41.35  Aligned_cols=58  Identities=21%  Similarity=0.306  Sum_probs=39.0

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 005055          546 KRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQ  603 (716)
Q Consensus       546 k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~  603 (716)
                      +.+++.+.||+...-.+..++..|..+++.+|.+-+++...++.+..+...+....+.
T Consensus        63 K~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~  120 (193)
T PF14662_consen   63 KALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDG  120 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhh
Confidence            4567788888777777777777777777777777777776666666655544444433

>PLN03108 Rab family protein; Provisional

Probab=95.31  E-value=0.026  Score=57.37  Aligned_cols=58  Identities=24%  Similarity=0.342  Sum_probs=36.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |...+   ..|.|+-.....+.   .++..+.+-++||.|..
T Consensus         9 ivivG~~gvGKStLi~~l~~~~--~~~~~---~~ti~~~~~~~~i~---~~~~~i~l~l~Dt~G~~   66 (210)
T PLN03108          9 YIIIGDTGVGKSCLLLQFTDKR--FQPVH---DLTIGVEFGARMIT---IDNKPIKLQIWDTAGQE   66 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCCC---CCCccceEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            7899999999999999999765  53321   12333211111111   13445778899999853

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=95.30  E-value=0.019  Score=47.87  Aligned_cols=58  Identities=16%  Similarity=0.198  Sum_probs=36.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccC-----CCCceeEEEEeC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTAL-----DGTEYNLLLLDS  135 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~-----~g~~~~vvlLDT  135 (716)
                      ||+|+|+.++|||++++.|...-.|..+     ....++|++...+.....     .......+++|+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l~~~~~-----~~i~~~~I~eg~~~~~~~~~~~~~~~~d~~Iyld~   63 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQLGGRSV-----VVLDEIVILEGLYASYKSRDARIRDLADLKIYLDA   63 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhcCCCE-----EEEeEEEEecchhhhhhhHHhhccccccEEEEEEe
Confidence            5889999999999999998865211111     123448888765543211     112235777887

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd04143 Rhes_like Rhes_like subfamily

Probab=95.29  E-value=0.064  Score=56.23  Aligned_cols=57  Identities=26%  Similarity=0.450  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.-.  ..|.+..+..+..     ..+|+.+.|-++||.|..
T Consensus         3 VvvlG~~gvGKTSLi~r~~~~~--f~~~--y~pTi~d~~~k~~-----~i~~~~~~l~I~Dt~G~~   59 (247)
T cd04143           3 MVVLGASKVGKTAIVSRFLGGR--FEEQ--YTPTIEDFHRKLY-----SIRGEVYQLDILDTSGNH   59 (247)
T ss_pred             EEEECcCCCCHHHHHHHHHcCC--CCCC--CCCChhHhEEEEE-----EECCEEEEEEEEECCCCh
Confidence            7899999999999999999765  6432  1122211221111     124556788899999964

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.29  E-value=0.027  Score=54.70  Aligned_cols=54  Identities=20%  Similarity=0.186  Sum_probs=36.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++.+..  |.-  .. ..|.|.....  +     ++..+.+.++||.|..
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~--~~~--~~-~pt~g~~~~~--i-----~~~~~~l~i~Dt~G~~   55 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSER--SLE--SV-VPTTGFNSVA--I-----PTQDAIMELLEIGGSQ   55 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--Ccc--cc-cccCCcceEE--E-----eeCCeEEEEEECCCCc
Confidence            6899999999999999999764  432  11 2355643211  1     2345789999999853

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.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=95.28  E-value=1.9  Score=41.30  Aligned_cols=76  Identities=20%  Similarity=0.248  Sum_probs=35.7

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHH
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKR  599 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r  599 (716)
                      ....+.+.+.++..++.+++..+..+..++..+.|.    +.....+..|+.+...+......+.-.|+++..|+..+.+
T Consensus        12 LK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~da----En~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k   87 (140)
T PF10473_consen   12 LKESESEKDSLEDHVESLERELEMSQENKECLILDA----ENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDK   87 (140)
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444455555555555555455445555555553    3333333444444444444444444444444444444433

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PRK09602 translation-associated GTPase; Reviewed

Probab=95.25  E-value=0.032  Score=62.55  Aligned_cols=64  Identities=23%  Similarity=0.334  Sum_probs=39.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEee------------ccccccccCCCC-ceeEEEEeCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLW------------SAPLKRTALDGT-EYNLLLLDSE  136 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw------------~~p~~~~~~~g~-~~~vvlLDTE  136 (716)
                      -|+|+|.+.+|||+|+|+|.+..  +.+++   ++...+.|+-.-            +.|.....++|. .+.+-|+||.
T Consensus         3 kigivG~pnvGKSTlfn~Lt~~~--~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~a   80 (396)
T PRK09602          3 TIGLVGKPNVGKSTFFNAATLAD--VEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVA   80 (396)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc--ccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcC
Confidence            48999999999999999999875  44322   222234565221            122111012222 2568899999


Q ss_pred             CC
Q 005055          137 GI  138 (716)
Q Consensus       137 Gl  138 (716)
                      |+
T Consensus        81 Gl   82 (396)
T PRK09602         81 GL   82 (396)
T ss_pred             Cc
Confidence            98

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=95.23  E-value=0.04  Score=54.50  Aligned_cols=58  Identities=22%  Similarity=0.248  Sum_probs=38.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEE--eeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLW--LWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIW--mw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ++- |.++|..++|||+|+|++.+..  |.  ++  ..|.|+-  .+..++    .++..+.+-+.||.|.
T Consensus         3 ~~k-v~~vG~~~~GKTsli~~~~~~~--~~--~~--~~t~~~~~~~~~~~~----~~~~~~~l~l~Dt~G~   62 (183)
T cd04152           3 SLH-IVMLGLDSAGKTTVLYRLKFNE--FV--NT--VPTKGFNTEKIKVSL----GNSKGITFHFWDVGGQ   62 (183)
T ss_pred             ceE-EEEECCCCCCHHHHHHHHhcCC--cC--Cc--CCccccceeEEEeec----cCCCceEEEEEECCCc
Confidence            344 6788999999999999998754  42  12  2344532  222222    2345578999999995

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.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=95.21  E-value=0.024  Score=63.70  Aligned_cols=61  Identities=26%  Similarity=0.388  Sum_probs=40.2

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .++. |+|+|++..|||.|||.|....-  .+-+.+-.+|+..-=  .+|   .++|  +.|.|.||-|+-
T Consensus       267 ~gl~-iaIvGrPNvGKSSLlNaL~~~dr--sIVSpv~GTTRDaie--a~v---~~~G--~~v~L~DTAGiR  327 (531)
T KOG1191|consen  267 SGLQ-IAIVGRPNVGKSSLLNALSREDR--SIVSPVPGTTRDAIE--AQV---TVNG--VPVRLSDTAGIR  327 (531)
T ss_pred             cCCe-EEEEcCCCCCHHHHHHHHhcCCc--eEeCCCCCcchhhhe--eEe---ecCC--eEEEEEeccccc
Confidence            4555 88999999999999999998752  222222233443211  112   2466  789999999983

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=95.19  E-value=4.6  Score=46.58  Aligned_cols=104  Identities=16%  Similarity=0.170  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHhhhHHHH
Q 005055          561 DYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQ----------KAMEDQVCSEIEVLKSRSTAAE  630 (716)
Q Consensus       561 ~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~----------k~~~~~~~~~i~~l~~r~~~~e  630 (716)
                      .+..++..++.+...+..++..-+-.+-.++.++...+......++..          ......+...+.+++.....++
T Consensus       251 ~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~  330 (498)
T TIGR03007       251 ELDGRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLE  330 (498)
T ss_pred             chHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666666667777777777777777777777665543321          0112335556666666666777


Q ss_pred             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Q 005055          631 ARLAAAREQALSAQEEVE---EWKRKYGVAVREAKAA  664 (716)
Q Consensus       631 erl~~~~~ql~~ak~E~~---~w~~kY~~~~~~~Ka~  664 (716)
                      .+++++..++...+++..   ..-.+|..+.++...+
T Consensus       331 ~~~~~l~~~~~~~~~~~~~~~~~~~el~~L~Re~~~~  367 (498)
T TIGR03007       331 ARVAELTARIERLESLLRTIPEVEAELTQLNRDYEVN  367 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHH
Confidence            777777777666666655   3444666666444333

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>cd01882 BMS1 Bms1

Probab=95.18  E-value=0.031  Score=57.65  Aligned_cols=55  Identities=20%  Similarity=0.320  Sum_probs=37.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce-EEeeccccccccCCCCceeEEEEeCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG-LWLWSAPLKRTALDGTEYNLLLLDSEG  137 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG-IWmw~~p~~~~~~~g~~~~vvlLDTEG  137 (716)
                      .|=.+|+|+|+.++|||+|+|.|++...+-.+     ....| +++|+.       +  ...+.++||+|
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~-----~~~~g~i~i~~~-------~--~~~i~~vDtPg   92 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNI-----SDIKGPITVVTG-------K--KRRLTFIECPN   92 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcc-----ccccccEEEEec-------C--CceEEEEeCCc
Confidence            34467999999999999999999976322111     12334 555431       1  24678999997

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.

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.18  E-value=3.5  Score=50.65  Aligned_cols=171  Identities=14%  Similarity=0.218  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH-----------------hHHHHHHHHHHHHHHHHHHH--
Q 005055          506 IDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK-----------------RYDDAINDKKKLADDYTSRI--  566 (716)
Q Consensus       506 ~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k-----------------~lee~i~dlk~~~e~~~~~~--  566 (716)
                      ...++..+..+.+.+..+..+++.++..++..+...+..+.                 +.+..+++|++.|+....++  
T Consensus       678 ~~~v~~~i~~le~~~~~~~~~~~~~k~~l~~~~~El~~~~~~i~~~~p~i~~i~r~l~~~e~~~~~L~~~~n~ved~if~  757 (1141)
T KOG0018|consen  678 VSSVESKIHGLEMRLKYSKLDLEQLKRSLEQNELELQRTESEIDEFGPEISEIKRKLQNREGEMKELEERMNKVEDRIFK  757 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             --------------------------HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Q 005055          567 --------------------------NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCS  617 (716)
Q Consensus       567 --------------------------~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~  617 (716)
                                                ..|+.+...++-++....+  ..+.....-|++..+..   +...++..+.+..
T Consensus       758 ~f~~~igv~ir~Yee~~~~~~~a~k~~ef~~q~~~l~~~l~fe~~--~d~~~~ve~~~~~v~~~~~~~~~~~~~e~~~~k  835 (1141)
T KOG0018|consen  758 GFCRRIGVRIREYEERELQQEFAKKRLEFENQKAKLENQLDFEKQ--KDTQRRVERWERSVEDLEKEIEGLKKDEEAAEK  835 (1141)
T ss_pred             HhhhhcCeeeehHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheec--ccHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHH


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHH
Q 005055          618 EIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVL  686 (716)
Q Consensus       618 ~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~  686 (716)
                      .|++.    ..+|.+-   .....-++.|+.+|+..-..++ +..+-|++.|..-+..++.....-..+
T Consensus       836 ~i~e~----~~~e~k~---k~~~~~~~~e~~e~~k~~~~~~-~~~tkl~~~i~~~es~ie~~~~er~~l  896 (1141)
T KOG0018|consen  836 IIAEI----EELEKKN---KSKFEKKEDEINEVKKILRRLV-KELTKLDKEITSIESKIERKESERHNL  896 (1141)
T ss_pred             HHhhH----HHHHHHH---HHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhhhhhhhhHHHHHHHHHHHH

>cd04158 ARD1 ARD1 subfamily

Probab=95.17  E-value=0.036  Score=53.93  Aligned_cols=53  Identities=23%  Similarity=0.223  Sum_probs=36.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |.  + . ..|.|+-....       +...+.+.++||.|..
T Consensus         2 vvlvG~~~~GKTsl~~~l~~~~--~~--~-~-~~T~~~~~~~~-------~~~~~~i~l~Dt~G~~   54 (169)
T cd04158           2 VVTLGLDGAGKTTILFKLKQDE--FM--Q-P-IPTIGFNVETV-------EYKNLKFTIWDVGGKH   54 (169)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CC--C-c-CCcCceeEEEE-------EECCEEEEEEECCCCh
Confidence            5699999999999999999864  42  1 1 23556443311       1234789999999964

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.17  E-value=0.025  Score=54.09  Aligned_cols=58  Identities=28%  Similarity=0.420  Sum_probs=41.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++.+..  |.-   .-..|.|+-....++..   ++..+.+-+.||.|.+
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~--~~~---~~~~t~~~~~~~~~~~~---~~~~~~l~i~D~~g~~   59 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE--FPE---NYIPTIGIDSYSKEVSI---DGKPVNLEIWDTSGQE   59 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS--TTS---SSETTSSEEEEEEEEEE---TTEEEEEEEEEETTSG
T ss_pred             EEEECCCCCCHHHHHHHHHhhc--ccc---ccccccccccccccccc---cccccccccccccccc
Confidence            6799999999999999998764  642   12336666555554432   3567889999999853

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 ....

>PRK04004 translation initiation factor IF-2; Validated

Probab=95.14  E-value=0.069  Score=62.86  Aligned_cols=23  Identities=30%  Similarity=0.628  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+|+|...+|||+|+|+|.|..
T Consensus         8 ~V~i~Gh~~~GKTSLl~~l~~~~   30 (586)
T PRK04004          8 IVVVLGHVDHGKTTLLDKIRGTA   30 (586)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            69999999999999999998764

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=95.12  E-value=4.1  Score=40.90  Aligned_cols=84  Identities=19%  Similarity=0.254  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q 005055          561 DYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQA  640 (716)
Q Consensus       561 ~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql  640 (716)
                      +-......+......+++++..+..+|..+++=..+-.|+|++.+-..=-...+    +..+..|.-..+.+|..+.+++
T Consensus        43 E~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~eEVarkL~iiE~d----LE~~eeraE~~Es~~~eLeEe~  118 (205)
T KOG1003|consen   43 ESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYEEVARKLVIIEGE----LERAEERAEAAESQSEELEEDL  118 (205)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH----HHHHHHHHHHHHHHHHHHHHHH
Confidence            333444667777778999999999999999999999999999997765443333    4444445556666666666666


Q ss_pred             HHHHHHHH
Q 005055          641 LSAQEEVE  648 (716)
Q Consensus       641 ~~ak~E~~  648 (716)
                      -...+...
T Consensus       119 ~~~~~nlk  126 (205)
T KOG1003|consen  119 RILDSNLK  126 (205)
T ss_pred             HHhHhHHH
Confidence            55555444

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=95.12  E-value=2.5  Score=51.44  Aligned_cols=27  Identities=22%  Similarity=0.185  Sum_probs=15.3

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLK  546 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k  546 (716)
                      .+-++.++..+++++++.+...+.+++
T Consensus       196 ~~~L~~ql~~l~~~l~~aE~~l~~fk~  222 (754)
T TIGR01005       196 ADFLAPEIADLSKQSRDAEAEVAAYRA  222 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555666666666666655555543

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.11  E-value=0.017  Score=63.14  Aligned_cols=51  Identities=24%  Similarity=0.154  Sum_probs=33.2

Q ss_pred             CCCeeEEEeCCCCceeeCHHHHHHhhc---cCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           40 ARPIRLVYCDEKGKFRMDPEAVAALQL---VKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        40 ~~pi~LI~~d~~~~l~v~~eAl~~L~~---i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ++.|-+|+++...   -++.+-.++..   ..++-.||+|+|++++|||||++.|..
T Consensus        25 a~~it~~e~~~~~---~~~~~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         25 ARAITLVESTRPD---HRALAQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             HHHHHHHhCCCch---hhHHHHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3456677654311   12334444443   345667999999999999999999763

>cd04168 TetM_like Tet(M)-like subfamily

Probab=95.07  E-value=0.065  Score=55.85  Aligned_cols=90  Identities=20%  Similarity=0.282  Sum_probs=49.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCc-ccccc-----CC-----CcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSG-FQVAS-----TH-----RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~g-F~~g~-----~~-----~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      |+|+|..++|||+|.|+|+..... ..+|.     ++     ...++|+=+-......   ...++.+.|+||+|...+.
T Consensus         2 i~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~---~~~~~~i~liDTPG~~~f~   78 (237)
T cd04168           2 IGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASF---QWEDTKVNLIDTPGHMDFI   78 (237)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEE---EECCEEEEEEeCCCccchH
Confidence            789999999999999999864311 11111     10     0112332221111110   1224678999999975321


Q ss_pred             cCCcchhHHHHHhhhccceEEEccCCCCc
Q 005055          143 QTGTYSTQIFSLAVLLSSMFIYNQMGGID  171 (716)
Q Consensus       143 ~~~~~d~~IFaLa~LLSS~~IyN~~g~i~  171 (716)
                           ..+.-++...=.-++|+.....+.
T Consensus        79 -----~~~~~~l~~aD~~IlVvd~~~g~~  102 (237)
T cd04168          79 -----AEVERSLSVLDGAILVISAVEGVQ  102 (237)
T ss_pred             -----HHHHHHHHHhCeEEEEEeCCCCCC
Confidence                 223345555556678888766554

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.

>cd04149 Arf6 Arf6 subfamily

Probab=95.07  E-value=0.047  Score=53.26  Aligned_cols=54  Identities=22%  Similarity=0.141  Sum_probs=36.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|+.++|||+|+++|.+..  |.   .. ..|.|+-.+..       .+.++.+.+.||.|.+
T Consensus        11 kv~i~G~~~~GKTsli~~l~~~~--~~---~~-~~t~g~~~~~~-------~~~~~~~~l~Dt~G~~   64 (168)
T cd04149          11 RILMLGLDAAGKTTILYKLKLGQ--SV---TT-IPTVGFNVETV-------TYKNVKFNVWDVGGQD   64 (168)
T ss_pred             EEEEECcCCCCHHHHHHHHccCC--Cc---cc-cCCcccceEEE-------EECCEEEEEEECCCCH
Confidence            46799999999999999998654  42   11 22455433311       1234789999999964

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=95.06  E-value=0.065  Score=63.20  Aligned_cols=102  Identities=21%  Similarity=0.298  Sum_probs=57.0

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccc---ccCCCc-----ccceEEeecccccc--ccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQV---ASTHRP-----CTKGLWLWSAPLKR--TALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~---g~~~~~-----~TkGIWmw~~p~~~--~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |-=|+|+|....|||+|+++|+.....+.-   +.+.-.     .+.||=+-..++..  ...+|..+.+.|+||+|...
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            445899999999999999999865322211   111111     23566544333221  11246668899999999753


Q ss_pred             cccCCcchhHHHHHhhhccceEEEccCCCCchHhhhh
Q 005055          141 YDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDR  177 (716)
Q Consensus       141 ~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~  177 (716)
                      +.     ..+.-++...=.-++||.....+..+.+..
T Consensus        83 F~-----~~v~~~l~~aD~aILVvDat~g~~~qt~~~  114 (595)
T TIGR01393        83 FS-----YEVSRSLAACEGALLLVDAAQGIEAQTLAN  114 (595)
T ss_pred             HH-----HHHHHHHHhCCEEEEEecCCCCCCHhHHHH
Confidence            21     122233333333456666655555544443

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.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.06  E-value=11  Score=45.32  Aligned_cols=48  Identities=10%  Similarity=0.185  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHH
Q 005055          550 DAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDW  597 (716)
Q Consensus       550 e~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~  597 (716)
                      +.+.++.+..+.+..++..++.+...++.++..+.++++.+++++..+
T Consensus       421 e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  468 (650)
T TIGR03185       421 EQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLDEK  468 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555666666666666666666666666666666666666555443

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PTZ00369 Ras-like protein; Provisional

Probab=95.05  E-value=0.041  Score=54.71  Aligned_cols=57  Identities=23%  Similarity=0.175  Sum_probs=35.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++++..  |.-  ... .|.|--++ ..+.   .++..+.+-++||.|..
T Consensus         8 i~iiG~~~~GKTsLi~~~~~~~--~~~--~~~-~t~~~~~~-~~~~---~~~~~~~l~i~Dt~G~~   64 (189)
T PTZ00369          8 LVVVGGGGVGKSALTIQFIQNH--FID--EYD-PTIEDSYR-KQCV---IDEETCLLDILDTAGQE   64 (189)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCc--CcC-CchhhEEE-EEEE---ECCEEEEEEEEeCCCCc
Confidence            6689999999999999999765  421  111 23332221 1111   23445677789999964

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.04  E-value=0.02  Score=64.57  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=21.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhh
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .+-.||.++|++++||||++..|+
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA  121 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLA  121 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345799999999999999999997

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.

>cd04131 Rnd Rnd subfamily

Probab=95.03  E-value=0.043  Score=54.33  Aligned_cols=56  Identities=23%  Similarity=0.310  Sum_probs=38.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE-EeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL-WLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI-Wmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++.+..  |.-  ...| |.|. +..  .+   ..++..+.+-+.||.|..
T Consensus         4 iv~vG~~~vGKTsli~~~~~~~--f~~--~~~~-t~~~~~~~--~~---~~~~~~~~l~iwDt~G~~   60 (178)
T cd04131           4 IVVVGDVQCGKTALLQVFAKDC--YPE--TYVP-TVFENYTA--SF---EIDEQRIELSLWDTSGSP   60 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCC--CcCC-ceEEEEEE--EE---EECCEEEEEEEEECCCch
Confidence            7899999999999999999765  642  2223 3343 322  22   124567889999999953

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.

>PRK10698 phage shock protein PspA; Provisional

Probab=95.03  E-value=3.7  Score=42.52  Aligned_cols=82  Identities=13%  Similarity=0.230  Sum_probs=47.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLT--------KQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGV  656 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~--------~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~  656 (716)
                      .+++..+..+.+|.++=+..|+        .-...+..+...++.|+......++.+..+..++...+..+.+++.|...
T Consensus        59 r~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~  138 (222)
T PRK10698         59 RRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQA  138 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444555554444422        11222344556666666666677777777777777777777777777777


Q ss_pred             HHHHHHHHHH
Q 005055          657 AVREAKAALE  666 (716)
Q Consensus       657 ~~~~~Ka~le  666 (716)
                      ++...+++--
T Consensus       139 L~aR~~~A~a  148 (222)
T PRK10698        139 LMLRHQAASS  148 (222)
T ss_pred             HHHHHHHHHH
Confidence            7765555443

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=95.01  E-value=0.038  Score=53.76  Aligned_cols=52  Identities=21%  Similarity=0.277  Sum_probs=35.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|+.++|||+|+|+|.+.   |...   ...|.|.=...  +.     ...+.+.++||.|.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~---~~~~---~~~t~g~~~~~--~~-----~~~~~~~i~D~~G~   53 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE---IPKK---VAPTVGFTPTK--LR-----LDKYEVCIFDLGGG   53 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC---CCcc---ccCcccceEEE--EE-----ECCEEEEEEECCCc
Confidence            689999999999999999875   4221   12355543221  21     12478899999995

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.

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=95.01  E-value=6.6  Score=42.94  Aligned_cols=122  Identities=18%  Similarity=0.231  Sum_probs=58.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEV  621 (716)
Q Consensus       542 ~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~  621 (716)
                      ..+...+++++..|+.....+....+.+..-.-.+.++...+..++..++.-..+..              ..=+..++.
T Consensus       148 ~gl~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~--------------~~D~~eL~~  213 (325)
T PF08317_consen  148 EGLKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIE--------------SCDQEELEA  213 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--------------hcCHHHHHH
Confidence            333344444444444444444444444444444444444444444444444333311              111234444


Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005055          622 LKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKE  678 (716)
Q Consensus       622 l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~  678 (716)
                      ++.++....+.+.+.+..+...+.+...++.+-+.+- ..|..+..+|+..++..++
T Consensus       214 lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~-~~k~~l~~eI~e~~~~~~~  269 (325)
T PF08317_consen  214 LRQELAEQKEEIEAKKKELAELQEELEELEEKIEELE-EQKQELLAEIAEAEKIREE  269 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence            4444445555555555555555555555555544444 5566666666666555543

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=94.96  E-value=0.04  Score=58.91  Aligned_cols=78  Identities=19%  Similarity=0.185  Sum_probs=48.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhC----CCCcccccc--CCCcccce-EEeeccccccccCCCCceeEEEEeCCCCcccccCC
Q 005055           73 VVSVCGRARQGKSFILNQLLG----RSSGFQVAS--THRPCTKG-LWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTG  145 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg----~~~gF~~g~--~~~~~TkG-IWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~  145 (716)
                      -|=|+|-+..|||.|+|.+..    ....-.+|+  |+-.-+.+ |-+...           ..+.++||+|...++-..
T Consensus       145 ~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~r-----------p~vy~iDTPGil~P~I~~  213 (335)
T KOG2485|consen  145 NVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHR-----------PPVYLIDTPGILVPSIVD  213 (335)
T ss_pred             eEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccC-----------CceEEecCCCcCCCCCCC
Confidence            467999999999999998753    222234443  23233444 222222           358899999998776555


Q ss_pred             cchhHHHHHhhhccce
Q 005055          146 TYSTQIFSLAVLLSSM  161 (716)
Q Consensus       146 ~~d~~IFaLa~LLSS~  161 (716)
                      ..+..=.||+.++++.
T Consensus       214 ~e~~lKLAL~g~Vkd~  229 (335)
T KOG2485|consen  214 VEDGLKLALCGLVKDH  229 (335)
T ss_pred             HHHhhhhhhccccccc
Confidence            5555444666555554

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=94.96  E-value=0.075  Score=62.50  Aligned_cols=24  Identities=33%  Similarity=0.624  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .||+|+|....|||+|+|+|.+..
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~   28 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSA   28 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            369999999999999999999874

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.

>cd04151 Arl1 Arl1 subfamily

Probab=94.95  E-value=0.057  Score=51.64  Aligned_cols=53  Identities=21%  Similarity=0.186  Sum_probs=34.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |. . +  ..|.|.-+..  +     ++.++.+-++||+|..
T Consensus         2 v~lvG~~~~GKTsl~~~l~~~~--~~-~-~--~~t~~~~~~~--~-----~~~~~~~~i~Dt~G~~   54 (158)
T cd04151           2 ILILGLDNAGKTTILYRLQLGE--VV-T-T--IPTIGFNVET--V-----TYKNLKFQVWDLGGQT   54 (158)
T ss_pred             EEEECCCCCCHHHHHHHHccCC--Cc-C-c--CCccCcCeEE--E-----EECCEEEEEEECCCCH
Confidence            6789999999999999997543  32 1 1  1233432211  1     1234678999999964

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=94.89  E-value=0.042  Score=66.22  Aligned_cols=27  Identities=44%  Similarity=0.866  Sum_probs=23.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+..|+|+|.+.+|||+|+|+|+|..
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~  299 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRR  299 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345679999999999999999999875

>COG1160 Predicted GTPases [General function prediction only]

Probab=94.89  E-value=0.11  Score=58.31  Aligned_cols=100  Identities=21%  Similarity=0.354  Sum_probs=55.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCc--ccc-ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc---cccC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSG--FQV-ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA---YDQT  144 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~g--F~~-g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~---~~~~  144 (716)
                      ..=|||+|.+..|||+|+|.|+|....  .++ |.|+.+ -..-|-|         +|+  .++|+||=|+--   +..+
T Consensus       178 ~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~-I~~~~e~---------~~~--~~~liDTAGiRrk~ki~e~  245 (444)
T COG1160         178 PIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDS-IDIEFER---------DGR--KYVLIDTAGIRRKGKITES  245 (444)
T ss_pred             ceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccc-eeeeEEE---------CCe--EEEEEECCCCCcccccccc
Confidence            446999999999999999999997521  122 222222 1223444         343  478899999831   1111


Q ss_pred             -Ccch--hHHHHHhhhccceEEEccCCCCchHhhhhhHHHH
Q 005055          145 -GTYS--TQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVT  182 (716)
Q Consensus       145 -~~~d--~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~  182 (716)
                       ..+.  -.+=|+.-.=.-.+|.+-...+.+++..-+.++.
T Consensus       246 ~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~  286 (444)
T COG1160         246 VEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIE  286 (444)
T ss_pred             eEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHH
Confidence             1111  1122222111224566666677777776555554

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=94.88  E-value=5.9  Score=41.50  Aligned_cols=106  Identities=16%  Similarity=0.298  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHHHH-HHHHHHHHHHHHhhhH
Q 005055          502 VKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEY----LKRYDDAINDKKKLAD-DYTSRINNLQGENISL  576 (716)
Q Consensus       502 ~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~----~k~lee~i~dlk~~~e-~~~~~~~~l~~k~~~l  576 (716)
                      ...+-+....-+..+..+...+.+.+..|.+.++..-+.-.+.    ++-++..|+.+...++ .+..+...++..+..|
T Consensus        18 ~~~le~e~~~Rr~~ee~r~~~i~e~i~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~~~~v~~~~~~~~~~~~~~l~~L   97 (247)
T PF06705_consen   18 ESDLENEKRQRREQEEQRFQDIKEQIQKLEKALEAEVKRRVESNKKLQSKFEEQINNMQERVENQISEKQEQLQSRLDSL   97 (247)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334344344445555666666666666666666655444443    3355666666644444 4444557888888888


Q ss_pred             HHHHHhhHHhHHHHHHHHHH-HHHHHHHHHHH
Q 005055          577 REKSSSLSKTVDSLKNEISD-WKRKYDQVLTK  607 (716)
Q Consensus       577 e~~~~~~~~~le~~k~e~~e-~~r~y~~~i~~  607 (716)
                      .+++..+.+.+..-+.+..+ +...+..+..+
T Consensus        98 ~~ri~~L~~~i~ee~~~r~~~ie~~~~~l~~~  129 (247)
T PF06705_consen   98 NDRIEALEEEIQEEKEERPQDIEELNQELVRE  129 (247)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            88888888877665555332 44444444333

>cd04134 Rho3 Rho3 subfamily

Probab=94.87  E-value=0.046  Score=54.39  Aligned_cols=57  Identities=26%  Similarity=0.235  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++++..  |.-.  . ..|.|.-.... +   ..++..+.+.+.||.|..
T Consensus         3 ivivG~~~vGKTsli~~~~~~~--~~~~--~-~~t~~~~~~~~-i---~~~~~~~~l~i~Dt~G~~   59 (189)
T cd04134           3 VVVLGDGACGKTSLLNVFTRGY--FPQV--Y-EPTVFENYVHD-I---FVDGLHIELSLWDTAGQE   59 (189)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCCc--c-CCcceeeeEEE-E---EECCEEEEEEEEECCCCh
Confidence            6799999999999999999765  5321  1 12333222111 1   124556789999999964

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.

>PRK10218 GTP-binding protein; Provisional

Probab=94.86  E-value=0.11  Score=61.36  Aligned_cols=93  Identities=13%  Similarity=0.287  Sum_probs=56.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccC---------CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST---------HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~---------~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .|--|+|+|...+|||+|+++|++....|.-...         ..-.+.||-+-......   +..++.+.++||+|...
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i---~~~~~~inliDTPG~~d   80 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAI---KWNDYRINIVDTPGHAD   80 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEE---ecCCEEEEEEECCCcch
Confidence            3566999999999999999999986655543211         12346788776543322   12347889999999754


Q ss_pred             cccCCcchhHHHHHhhhccceEEEccCCCC
Q 005055          141 YDQTGTYSTQIFSLAVLLSSMFIYNQMGGI  170 (716)
Q Consensus       141 ~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i  170 (716)
                      +..     .+..++...=.=++||+....+
T Consensus        81 f~~-----~v~~~l~~aDg~ILVVDa~~G~  105 (607)
T PRK10218         81 FGG-----EVERVMSMVDSVLLVVDAFDGP  105 (607)
T ss_pred             hHH-----HHHHHHHhCCEEEEEEecccCc
Confidence            321     2333333323334566654443

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans

Probab=94.85  E-value=3.4  Score=40.53  Aligned_cols=65  Identities=20%  Similarity=0.381  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          556 KKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIE  620 (716)
Q Consensus       556 k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~  620 (716)
                      +....++.++++.|+..++.|+.++..+.++...++..-.+|+++|..+-.....+-..+...+.
T Consensus        88 ~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~~e~~~l~er~~e~l~~~~e~ve  152 (158)
T PF09744_consen   88 RQERKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELKKEYNRLHERERELLRKLKEHVE  152 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444555555555555555555555555556655666666666665555444444444443

Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.85  E-value=5.5  Score=45.60  Aligned_cols=142  Identities=20%  Similarity=0.178  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 005055          524 EDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQ  603 (716)
Q Consensus       524 e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~  603 (716)
                      +..+++|+.+-+--++.+.+...+|+....+|+++++.+....+.-+.....+.+..++|......              
T Consensus       312 er~IerLkeqr~rderE~~EeIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk--------------  377 (654)
T KOG4809|consen  312 ERIIERLKEQRERDERERLEEIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLK--------------  377 (654)
T ss_pred             HHHHHHhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--------------
Confidence            578889998888888887777777777777766666655544332222222222222222222111              


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhH
Q 005055          604 VLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQRE  683 (716)
Q Consensus       604 ~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e  683 (716)
                                 ..+.+.+++=-+-+-.|.|..+++||-.|..=..+=+-.-+  +.+..-.+|++++.|+..+.-+|.-+
T Consensus       378 -----------~ds~Lk~leIalEqkkEec~kme~qLkkAh~~~ddar~~pe--~~d~i~~le~e~~~y~de~~kaqaev  444 (654)
T KOG4809|consen  378 -----------RDSKLKSLEIALEQKKEECSKMEAQLKKAHNIEDDARMNPE--FADQIKQLEKEASYYRDECGKAQAEV  444 (654)
T ss_pred             -----------hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhcChh--hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                       11111111111222234455555554444432221111111  11455678999999999999999988


Q ss_pred             HHHHHHHHH
Q 005055          684 DVLREEFSS  692 (716)
Q Consensus       684 ~~~~~~~~~  692 (716)
                      |.+=+=++.
T Consensus       445 drlLeilke  453 (654)
T KOG4809|consen  445 DRLLEILKE  453 (654)
T ss_pred             HHHHHHHHH
Confidence            887654443

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=94.80  E-value=0.097  Score=52.92  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=20.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -|+|+|..++|||+|+..|.|.
T Consensus         2 ~i~~~g~~~~GKttL~~~l~~~   23 (203)
T cd01888           2 NIGTIGHVAHGKSTLVKALSGV   23 (203)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999876

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

>cd01892 Miro2 Miro2 subfamily

Probab=94.78  E-value=0.063  Score=52.38  Aligned_cols=64  Identities=27%  Similarity=0.313  Sum_probs=41.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+|.=|.|+|..++|||+|+|++++..  |.+.. ..| |.|.-.....+   ..+|..+.+.+.||-|-.
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~--f~~~~-~~~-T~~~~~~~~~~---~~~~~~~~l~~~d~~g~~   65 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRS--FSLNA-YSP-TIKPRYAVNTV---EVYGQEKYLILREVGEDE   65 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCC--CCccc-CCC-ccCcceEEEEE---EECCeEEEEEEEecCCcc
Confidence            356778999999999999999999876  75221 122 33321111111   124556778888998753

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.

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.77  E-value=6.6  Score=41.52  Aligned_cols=76  Identities=18%  Similarity=0.313  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDS  589 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~  589 (716)
                      ++++..+......++.+++.|-.++++..+.    .++.++.|.+.+.++..+..+|..+...   +.+|-..+.+++++
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k----~~~~~~~i~~~~~eik~l~~eI~~~~~~---I~~r~~~l~~raRA  109 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSK----IDELQKEIDQSKAEIKKLQKEIAELKEN---IVERQELLKKRARA  109 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            4444444444444444444444444333222    1233344444444444444444443332   22334455555555


Q ss_pred             HHH
Q 005055          590 LKN  592 (716)
Q Consensus       590 ~k~  592 (716)
                      ...
T Consensus       110 mq~  112 (265)
T COG3883         110 MQV  112 (265)
T ss_pred             HHH
Confidence            544

>cd04128 Spg1 Spg1p

Probab=94.76  E-value=0.055  Score=53.73  Aligned_cols=58  Identities=21%  Similarity=0.332  Sum_probs=41.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..+.|||.|++++++..  |.-   .-..|.|+-.....+.   .+|..+.+-+.||.|..
T Consensus         3 i~vlG~~~vGKTsLi~~~~~~~--f~~---~~~~T~g~~~~~~~i~---~~~~~~~l~iwDt~G~~   60 (182)
T cd04128           3 IGLLGDAQIGKTSLMVKYVEGE--FDE---DYIQTLGVNFMEKTIS---IRGTEITFSIWDLGGQR   60 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCC---CCCCccceEEEEEEEE---ECCEEEEEEEEeCCCch
Confidence            6789999999999999999765  632   1234677654433332   24566889999999853

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

>cd04129 Rho2 Rho2 subfamily

Probab=94.76  E-value=0.063  Score=53.25  Aligned_cols=59  Identities=22%  Similarity=0.271  Sum_probs=36.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|+|+|+.++|||+|+|+|.+..  |.-  ...+ |.+..... ++.   .++..+.+.++||.|...
T Consensus         3 Ki~ivG~~g~GKStLl~~l~~~~--~~~--~~~~-t~~~~~~~-~~~---~~~~~~~l~i~Dt~g~~~   61 (187)
T cd04129           3 KLVIVGDGACGKTSLLSVFTLGE--FPE--EYHP-TVFENYVT-DCR---VDGKPVQLALWDTAGQEE   61 (187)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CCc--ccCC-cccceEEE-EEE---ECCEEEEEEEEECCCChh
Confidence            37899999999999999998543  421  1112 33332221 221   134456788999999643

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).

>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=94.76  E-value=0.15  Score=50.29  Aligned_cols=63  Identities=22%  Similarity=0.228  Sum_probs=43.9

Q ss_pred             HhhccC--CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           63 ALQLVK--EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        63 ~L~~i~--~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +|+.+.  .+=.=|.|+|+.++|||+|+++|.+..  +..   + ..|.|.=+...++       .++.+.+.|..|-
T Consensus         4 ~~~~~~~~~~~~~ililGl~~sGKTtll~~l~~~~--~~~---~-~pT~g~~~~~i~~-------~~~~~~~~d~gG~   68 (175)
T PF00025_consen    4 VLSKLKSKKKEIKILILGLDGSGKTTLLNRLKNGE--ISE---T-IPTIGFNIEEIKY-------KGYSLTIWDLGGQ   68 (175)
T ss_dssp             HHHHCTTTTSEEEEEEEESTTSSHHHHHHHHHSSS--EEE---E-EEESSEEEEEEEE-------TTEEEEEEEESSS
T ss_pred             HHHHhcccCcEEEEEEECCCccchHHHHHHhhhcc--ccc---c-Ccccccccceeee-------CcEEEEEEecccc
Confidence            444432  344457899999999999999998653  221   2 2377888776654       2378899999984

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 ....

>PRK12736 elongation factor Tu; Reviewed

Probab=94.75  E-value=0.077  Score=59.45  Aligned_cols=104  Identities=13%  Similarity=0.192  Sum_probs=55.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCC--------cccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSS--------GFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~--------gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|..-|+|+|...+|||+|++.|++...        ++.+.. ...-..+|+=+-.......   .....+.|+||+|..
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~---~~~~~i~~iDtPGh~   86 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYE---TEKRHYAHVDCPGHA   86 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEec---CCCcEEEEEECCCHH
Confidence            4555699999999999999999997421        111000 0011123332222211111   123467899999953


Q ss_pred             ccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       140 ~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      .+     ....+.+++..=.-++|+.....+..++.+++.+
T Consensus        87 ~f-----~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~  122 (394)
T PRK12736         87 DY-----VKNMITGAAQMDGAILVVAATDGPMPQTREHILL  122 (394)
T ss_pred             HH-----HHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHH
Confidence            11     1233445444344466777665566666555544

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.74  E-value=0.06  Score=53.75  Aligned_cols=40  Identities=30%  Similarity=0.347  Sum_probs=31.7

Q ss_pred             eCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           56 MDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        56 v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ++++..++|...-.+=.+|.|+|+.++|||+|++.|+|.-
T Consensus        10 ~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          10 FSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3677888887543334578999999999999999999764

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=94.74  E-value=0.0084  Score=73.46  Aligned_cols=138  Identities=17%  Similarity=0.321  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHH---HHHH-------HHHHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK---YDQV-------LTKQKAMEDQVC  616 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~---y~~~-------i~~~k~~~~~~~  616 (716)
                      .++..+.+++.++++....++.|......++.+.+.+..+|+..+.....+.+.   ++..       ++.-.+.+..+.
T Consensus       184 ~lE~qL~El~~klee~er~~~el~~~k~kL~~E~~eL~~qLee~e~~~~~l~r~k~~L~~qLeelk~~leeEtr~k~~L~  263 (859)
T PF01576_consen  184 QLEAQLNELQAKLEESERQRNELTEQKAKLQSENSELTRQLEEAESQLSQLQREKSSLESQLEELKRQLEEETRAKQALE  263 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHhhhhhhhH
Confidence            455666666555555555555555555555555555555554444444333331   1111       111222223333


Q ss_pred             HHHHHHHh-------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhHHHHhh
Q 005055          617 SEIEVLKS-------RSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVR-------EAKAALEKAAIVQERTSKEMQQR  682 (716)
Q Consensus       617 ~~i~~l~~-------r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~-------~~Ka~leq~~~~~~~~~e~~q~~  682 (716)
                      +.+..++.       .+..-++-.+.+..++..+..|+..|+.||+.-..       +.|-.|++.+.-....+++++.+
T Consensus       264 ~~l~~le~e~~~L~eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~~~~~  343 (859)
T PF01576_consen  264 KQLRQLEHELEQLREQLEEEEEAKSELERQLSKLNAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEEANAK  343 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333       33334445667788888999999999999998652       23334444444444444444444


Q ss_pred             HH
Q 005055          683 ED  684 (716)
Q Consensus       683 e~  684 (716)
                      -.
T Consensus       344 ~~  345 (859)
T PF01576_consen  344 VS  345 (859)
T ss_dssp             --
T ss_pred             HH
Confidence            33

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=94.72  E-value=0.052  Score=55.64  Aligned_cols=63  Identities=16%  Similarity=0.206  Sum_probs=40.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +-.=|.|+|..++|||+|+++++...  |.-.   ...|.|+-.+...+.   .++..+.+-++||.|...
T Consensus        12 ~~~Ki~vvG~~gvGKTsli~~~~~~~--f~~~---~~~tig~~~~~~~~~---~~~~~~~l~i~Dt~G~~~   74 (219)
T PLN03071         12 PSFKLVIVGDGGTGKTTFVKRHLTGE--FEKK---YEPTIGVEVHPLDFF---TNCGKIRFYCWDTAGQEK   74 (219)
T ss_pred             CceEEEEECcCCCCHHHHHHHHhhCC--CCCc---cCCccceeEEEEEEE---ECCeEEEEEEEECCCchh
Confidence            33458899999999999999987654  4321   123455433322121   134457899999999643

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=94.72  E-value=5.8  Score=40.65  Aligned_cols=33  Identities=6%  Similarity=0.130  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKS  580 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~  580 (716)
                      +++.|.+++..+-...+....++.++..++..+
T Consensus        35 ~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~   67 (221)
T PF04012_consen   35 MEEQLRKARQALARVMANQKRLERKLDEAEEEA   67 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344443334434333333333333333333

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PRK12735 elongation factor Tu; Reviewed

Probab=94.71  E-value=0.09  Score=58.96  Aligned_cols=26  Identities=19%  Similarity=0.265  Sum_probs=23.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|...|+|+|...+|||+|+|.|++.
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~   35 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKV   35 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHh
Confidence            56667999999999999999999973

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=94.71  E-value=6.3  Score=40.97  Aligned_cols=72  Identities=14%  Similarity=0.130  Sum_probs=36.9

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALS  642 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~  642 (716)
                      .++-.+.+.|++..+..+..    +...-+|.|+.++.-++.-..+-...-.+.++++|+..+-||.+=|+.+|+.
T Consensus        87 ~q~y~q~s~Leddlsqt~ai----keql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdE  158 (333)
T KOG1853|consen   87 VQFYQQESQLEDDLSQTHAI----KEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDE  158 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            44444555555554443333    3333344455555544443334444445566666666666666666666544

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=94.70  E-value=0.055  Score=52.69  Aligned_cols=57  Identities=19%  Similarity=0.282  Sum_probs=37.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++++..  |..  ...|++..++-+.  +.   .++..+.+-++||.|..
T Consensus         3 ~~i~G~~~~GKtsl~~~~~~~~--~~~--~~~~t~~~~~~~~--~~---~~~~~~~~~i~Dt~G~~   59 (173)
T cd04130           3 CVLVGDGAVGKTSLIVSYTTNG--YPT--EYVPTAFDNFSVV--VL---VDGKPVRLQLCDTAGQD   59 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCC--CCCCceeeeeeEE--EE---ECCEEEEEEEEECCCCh
Confidence            6899999999999999998754  532  2223332333222  21   13555788999999964

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,

>cd01874 Cdc42 Cdc42 subfamily

Probab=94.68  E-value=0.063  Score=52.79  Aligned_cols=57  Identities=25%  Similarity=0.293  Sum_probs=38.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++.+..  |.-  ...| |.|.-... .+   ..++..+.+.+.||.|..
T Consensus         4 i~vvG~~~vGKTsl~~~~~~~~--f~~--~~~p-t~~~~~~~-~~---~~~~~~~~l~i~Dt~G~~   60 (175)
T cd01874           4 CVVVGDGAVGKTCLLISYTTNK--FPS--EYVP-TVFDNYAV-TV---MIGGEPYTLGLFDTAGQE   60 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC--CCCC-ceeeeeEE-EE---EECCEEEEEEEEECCCcc
Confidence            7899999999999999999765  631  1223 44432221 11   124556889999999964

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

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=94.68  E-value=0.062  Score=54.47  Aligned_cols=57  Identities=18%  Similarity=0.272  Sum_probs=35.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|+.++|||+|+++|.+..  |.-..+......+.|.  .+.     .+....+.|+||+|..
T Consensus         3 vll~G~~~sGKTsL~~~l~~~~--~~~t~~s~~~~~~~~~--~~~-----~~~~~~~~l~D~pG~~   59 (203)
T cd04105           3 VLLLGPSDSGKTALFTKLTTGK--YRSTVTSIEPNVATFI--LNS-----EGKGKKFRLVDVPGHP   59 (203)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC--CCCccCcEeecceEEE--eec-----CCCCceEEEEECCCCH
Confidence            7899999999999999999764  3221111111222222  111     1234678899999964

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

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=13  Score=44.44  Aligned_cols=207  Identities=15%  Similarity=0.125  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHHHH-HHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 005055          503 KRLIDQIGSERSSLM-LKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSS  581 (716)
Q Consensus       503 k~l~~~i~~e~~~l~-~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~  581 (716)
                      +++..-...++++.+ +..+..+..++.+....+++++.+.... ++-..+.-.-..++++..++..|-.+.++-+++.=
T Consensus       407 q~l~~~~k~e~~e~~k~~~d~~~r~~~~~~~~~e~Lqk~~~~~k-~ll~e~~t~gsA~ed~Qeqn~kL~~el~ekdd~nf  485 (698)
T KOG0978|consen  407 QRLKALDKEERSEIRKQALDDAERQIRQVEELSEELQKKEKNFK-CLLSEMETIGSAFEDMQEQNQKLLQELREKDDKNF  485 (698)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            333333333344443 3333344444444444444444444333 33333333355566666666666666666666665


Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Q 005055          582 SLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQ---ALSAQEEVEEWKRKYG  655 (716)
Q Consensus       582 ~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~q---l~~ak~E~~~w~~kY~  655 (716)
                      -+......+.+..--++..+.-+   +...+...+.+.-.|..++-+..-+....+.+..+   +..+.+....=-.+|.
T Consensus       486 klm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~  565 (698)
T KOG0978|consen  486 KLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAK  565 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555544444444443   33333333334444443433322222222222222   2222222222223677


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH-HHHHHHHHHHhhhhhhhh
Q 005055          656 VAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS-TLAEKVLSYLSRSLSRAR  710 (716)
Q Consensus       656 ~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~-~~~~~~~~~~~~~~~~~~  710 (716)
                      ..+..-+..++.-.+.++.+-.+++..+.++.-+-.. .=.+=|+.-|.|-|+|-+
T Consensus       566 ~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kle~~k  621 (698)
T KOG0978|consen  566 QSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKLERLK  621 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7777778888888888888888888888888766443 445567777887777654

>cd01871 Rac1_like Rac1-like subfamily

Probab=94.65  E-value=0.062  Score=52.79  Aligned_cols=57  Identities=25%  Similarity=0.310  Sum_probs=37.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+.++++..  |.-  ...|.+...+.+.  +   ..++..+.+.++||.|.+
T Consensus         4 i~iiG~~~vGKSsli~~~~~~~--f~~--~~~~t~~~~~~~~--~---~~~~~~~~l~i~Dt~G~~   60 (174)
T cd01871           4 CVVVGDGAVGKTCLLISYTTNA--FPG--EYIPTVFDNYSAN--V---MVDGKPVNLGLWDTAGQE   60 (174)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCC--cCCCcceeeeEEE--E---EECCEEEEEEEEECCCch
Confidence            6899999999999999998754  531  1123222222221  1   124666889999999964

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

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=94.64  E-value=0.029  Score=60.13  Aligned_cols=57  Identities=30%  Similarity=0.388  Sum_probs=42.2

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC-----CccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS-----SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~-----~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ..++.||||+|-+.+|||+|+|+|.+..     .=|.   |-.|+++-.-|         |+|  ..++|-||=||
T Consensus       175 ~~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFA---TLDpT~h~a~L---------psg--~~vlltDTvGF  236 (410)
T KOG0410|consen  175 GESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFA---TLDPTLHSAHL---------PSG--NFVLLTDTVGF  236 (410)
T ss_pred             cCCCceEEEEeecCccHHHHHHHHHhhhcCccchhhe---eccchhhhccC---------CCC--cEEEEeechhh
Confidence            3588999999999999999999998542     2243   44555554433         556  46899999997

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=94.57  E-value=0.049  Score=53.99  Aligned_cols=53  Identities=25%  Similarity=0.292  Sum_probs=35.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++....  |.   +..| |.|.-..  ++     +...+.+.|.||.|.+
T Consensus        20 v~lvG~~~vGKTsli~~~~~~~--~~---~~~~-T~~~~~~--~~-----~~~~~~~~l~D~~G~~   72 (182)
T PTZ00133         20 ILMVGLDAAGKTTILYKLKLGE--VV---TTIP-TIGFNVE--TV-----EYKNLKFTMWDVGGQD   72 (182)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC--cc---ccCC-ccccceE--EE-----EECCEEEEEEECCCCH
Confidence            7788999999999999996443  42   1223 5564332  11     1234789999999953

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=94.56  E-value=3.4  Score=48.09  Aligned_cols=85  Identities=18%  Similarity=0.211  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H-----------HHHHHhhhH
Q 005055          562 YTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCS---E-----------IEVLKSRST  627 (716)
Q Consensus       562 ~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~---~-----------i~~l~~r~~  627 (716)
                      ....+..+..+...+.+.+..+.-.+++.+.+..+|+.+-...++++-+..+.|.+   .           +..|+..+.
T Consensus       205 A~~~~~~~l~~~~e~~~~l~l~~~~~~~~~~el~~Yk~kA~~iLq~kEklI~~LK~~~~~~~~~~~~~~~el~~l~~E~~  284 (511)
T PF09787_consen  205 ALRHYIEYLRESGELQEQLELLKAEGESEEAELQQYKQKAQRILQSKEKLIESLKEGCLEEGFDSSTNSIELEELKQERD  284 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccccccccchhcchhhHHHHH
Confidence            44456667778888888899999999999999999998888877776666666655   1           344444444


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005055          628 AAEARLAAAREQALSAQEE  646 (716)
Q Consensus       628 ~~eerl~~~~~ql~~ak~E  646 (716)
                      .+.+.+..++.|++..+.|
T Consensus       285 ~~~ee~~~l~~Qi~~l~~e  303 (511)
T PF09787_consen  285 HLQEEIQLLERQIEQLRAE  303 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555555554333333

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=94.54  E-value=14  Score=44.21  Aligned_cols=42  Identities=10%  Similarity=0.096  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHhhcccCC-CCC--hHHHHHHHHHHHHHHHHHhhh
Q 005055          357 RAYDSATETYMSTFDRSK-PPE--EVALGEAHEAAVQKALAVYNA  398 (716)
Q Consensus       357 ~a~~~A~~~Y~~~m~~~~-p~~--e~eL~~~H~~~~~~Al~~F~~  398 (716)
                      .++++++.-|.....+.. -++  ..++.....+.-.++=++|+.
T Consensus       123 q~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~  167 (1265)
T KOG0976|consen  123 QKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMI  167 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHH
Confidence            366777777776655432 111  123333334444445555654

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.53  E-value=3.5  Score=44.91  Aligned_cols=86  Identities=15%  Similarity=0.189  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHH----HHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005055          550 DAINDKKKLADDYTSRINNLQGENISLR----EKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSR  625 (716)
Q Consensus       550 e~i~dlk~~~e~~~~~~~~l~~k~~~le----~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r  625 (716)
                      +.+-++++..+.+..+.++|+.-...++    +....++..|.....+++..+++.++.    +..-+.+...|++...+
T Consensus       172 ~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~----~~~l~~l~~~I~~~~~~  247 (312)
T smart00787      172 SIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEEL----EEELQELESKIEDLTNK  247 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            3333344444444444444444444432    234444444444444444444443332    22223344444444444


Q ss_pred             hHHHHHHHHHHHHH
Q 005055          626 STAAEARLAAAREQ  639 (716)
Q Consensus       626 ~~~~eerl~~~~~q  639 (716)
                      .+.+++.+++++..
T Consensus       248 k~e~~~~I~~ae~~  261 (312)
T smart00787      248 KSELNTEIAEAEKK  261 (312)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444444443

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>cd04120 Rab12 Rab12 subfamily

Probab=94.50  E-value=0.067  Score=54.34  Aligned_cols=58  Identities=19%  Similarity=0.307  Sum_probs=40.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++....  |.-   ..+.|-|+-.....+.   .+|..+.+-+.||.|..
T Consensus         3 vvvlG~~gVGKTSli~r~~~~~--f~~---~~~~Ti~~~~~~~~i~---~~~~~v~l~iwDtaGqe   60 (202)
T cd04120           3 VIIIGSRGVGKTSLMRRFTDDT--FCE---ACKSGVGVDFKIKTVE---LRGKKIRLQIWDTAGQE   60 (202)
T ss_pred             EEEECcCCCCHHHHHHHHHhCC--CCC---cCCCcceeEEEEEEEE---ECCEEEEEEEEeCCCch
Confidence            6799999999999999998765  632   1234555543332222   24566889999999953

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=94.45  E-value=0.11  Score=61.38  Aligned_cols=103  Identities=18%  Similarity=0.293  Sum_probs=58.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccc---ccCC-----CcccceEEeeccccc--cccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQV---ASTH-----RPCTKGLWLWSAPLK--RTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~---g~~~-----~~~TkGIWmw~~p~~--~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +--|+|+|....|||+|+++|+.....+.-   +.+.     .-.+.||=+....+.  ...++|+.+.+-|+||+|..+
T Consensus         7 iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~d   86 (600)
T PRK05433          7 IRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVD   86 (600)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHH
Confidence            445789999999999999999864322211   1111     012345544432221  111356678899999999754


Q ss_pred             cccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          141 YDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       141 ~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      +.     ..+.-++...=.-++|+.....+..+.+..+
T Consensus        87 F~-----~~v~~sl~~aD~aILVVDas~gv~~qt~~~~  119 (600)
T PRK05433         87 FS-----YEVSRSLAACEGALLVVDASQGVEAQTLANV  119 (600)
T ss_pred             HH-----HHHHHHHHHCCEEEEEEECCCCCCHHHHHHH
Confidence            32     1122234443345677777666665555443

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=94.42  E-value=3.7  Score=49.59  Aligned_cols=81  Identities=15%  Similarity=0.225  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRST  627 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~  627 (716)
                      +++.+.+++...+.++.++.....+-..|..|+..+...+....-..++.+|++..-+...+..-..++.+|+.++.+..
T Consensus       584 l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~l~~l~~si~~lk~k~~  663 (717)
T PF10168_consen  584 LQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQLQDLKASIEQLKKKLD  663 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666666666667777777777777776666667777777766655543334445555554444443


Q ss_pred             H
Q 005055          628 A  628 (716)
Q Consensus       628 ~  628 (716)
                      .
T Consensus       664 ~  664 (717)
T PF10168_consen  664 Y  664 (717)
T ss_pred             H
Confidence            3

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=94.40  E-value=0.087  Score=53.58  Aligned_cols=61  Identities=20%  Similarity=0.180  Sum_probs=39.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEee--ccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLW--SAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw--~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|..++|||.|++++.+..  |.-.   ...|.|.=+.  ...+....+++..+.+-+.||.|..
T Consensus         3 IvlvGd~gVGKTSLi~~~~~~~--f~~~---~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e   65 (202)
T cd04102           3 VLVVGDSGVGKSSLVHLICKNQ--VLGR---PSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSE   65 (202)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCCC---CCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCch
Confidence            7799999999999999999875  5321   1235552221  1122111234567889999999953

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.

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=94.37  E-value=0.056  Score=52.27  Aligned_cols=40  Identities=35%  Similarity=0.643  Sum_probs=32.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCC-ccccccCCCcccceEEeecccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSS-GFQVASTHRPCTKGLWLWSAPL  118 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~-gF~~g~~~~~~TkGIWmw~~p~  118 (716)
                      -||++.||.++|||||+..+.|.-. -|       +||--||+-...+
T Consensus        29 eivtlMGPSGcGKSTLls~~~G~La~~F-------~~~G~~~l~~~~l   69 (213)
T COG4136          29 EIVTLMGPSGCGKSTLLSWMIGALAGQF-------SCTGELWLNEQRL   69 (213)
T ss_pred             cEEEEECCCCccHHHHHHHHHhhcccCc-------ceeeEEEECCeec
Confidence            3799999999999999999998753 25       5788899876544

>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=94.37  E-value=0.029  Score=51.27  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||.|+|+++|||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999864

...

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=94.29  E-value=0.068  Score=55.33  Aligned_cols=24  Identities=25%  Similarity=0.454  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          29 ELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999864

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG2262 HflX GTPases [General function prediction only]

Probab=94.29  E-value=0.059  Score=59.62  Aligned_cols=56  Identities=34%  Similarity=0.492  Sum_probs=45.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC-----CccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS-----SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~-----~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .++-.||++|-+.+|||+|+|.|.|..     .=|   .|-.|+|+-|-+++         |  ..++|-||=||
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LF---ATLdpttR~~~l~~---------g--~~vlLtDTVGF  250 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLF---ATLDPTTRRIELGD---------G--RKVLLTDTVGF  250 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeecccccc---ccccCceeEEEeCC---------C--ceEEEecCccC
Confidence            588899999999999999999999753     235   46678899888764         2  35899999997

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=94.23  E-value=0.05  Score=54.98  Aligned_cols=24  Identities=21%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++|||||++.|+|..
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCc
Confidence            479999999999999999999864

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=94.23  E-value=18  Score=44.13  Aligned_cols=91  Identities=14%  Similarity=0.190  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 005055          559 ADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAARE  638 (716)
Q Consensus       559 ~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~  638 (716)
                      ++.+.++...+..-.+.++.++.......++++....+.+-....+...    ...|..+|..-+.-+..+..+|.++++
T Consensus       633 L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~e~E~~~l~~K----i~~Le~Ele~er~~~~e~~~kc~~Le~  708 (769)
T PF05911_consen  633 LEELQSELESAKESNSLAETQLKAMKESYESLETRLKDLEAEAEELQSK----ISSLEEELEKERALSEELEAKCRELEE  708 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH----HHHHHHHHHHHHhcchhhhhHHHHHHH
Confidence            3333344444444444444444444444444444433333333333222    344666666666678888889999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 005055          639 QALSAQEEVEEWKRK  653 (716)
Q Consensus       639 ql~~ak~E~~~w~~k  653 (716)
                      ++...+.+...|.-.
T Consensus       709 el~r~~~~~~~~~~~  723 (769)
T PF05911_consen  709 ELERMKKEESLQQLA  723 (769)
T ss_pred             HHHhhhcccchhhcc
Confidence            999988888777553

The function of this family is unknown.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.23  E-value=0.036  Score=52.69  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=20.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+||.++|||+|++.|.+.
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999999976

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PLN03126 Elongation factor Tu; Provisional

Probab=94.22  E-value=0.15  Score=58.68  Aligned_cols=104  Identities=13%  Similarity=0.193  Sum_probs=56.3

Q ss_pred             cCCCEEEEEeeCCCCCChhHHHHHhhCCCC--------cccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCC
Q 005055           67 VKEPIGVVSVCGRARQGKSFILNQLLGRSS--------GFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEG  137 (716)
Q Consensus        67 i~~pV~VVsV~G~~rtGKS~LlN~llg~~~--------gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEG  137 (716)
                      ...|..-|+|+|...+|||+|+|+|++...        ++.... +.+-..+||=+-.......   ..+..+.|+||+|
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~---~~~~~i~liDtPG  153 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYE---TENRHYAHVDCPG  153 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEe---cCCcEEEEEECCC
Confidence            456788899999999999999999996421        111111 1122345664432211111   1224678899999


Q ss_pred             CcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          138 IDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       138 l~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      ...+     ....+.+++..=.-++|+.....+..+..+++
T Consensus       154 h~~f-----~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~  189 (478)
T PLN03126        154 HADY-----VKNMITGAAQMDGAILVVSGADGPMPQTKEHI  189 (478)
T ss_pred             HHHH-----HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHH
Confidence            5321     12334455433334566665544544444433

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=94.21  E-value=3.9  Score=48.32  Aligned_cols=31  Identities=23%  Similarity=0.224  Sum_probs=14.6

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 005055          617 SEIEVLKSRSTAAEARLAAAREQALSAQEEV  647 (716)
Q Consensus       617 ~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~  647 (716)
                      ..|+.|+.-+...++|+..|..|-+..+...
T Consensus       394 ~ni~kL~~~v~~s~~rl~~L~~qWe~~R~pL  424 (594)
T PF05667_consen  394 ENIAKLQALVEASEQRLVELAQQWEKHRAPL  424 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            3444444444455555555555544444433

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=94.20  E-value=2.4  Score=39.68  Aligned_cols=98  Identities=22%  Similarity=0.316  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 005055          559 ADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAARE  638 (716)
Q Consensus       559 ~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~  638 (716)
                      ++.+.+.+..++.++..+.+++..+..+-+.+..|+..+...-++.-. ..+.-..+..++++++.|..++=+-+.+=.+
T Consensus        18 ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~-~~~~~~~L~~el~~l~~ry~t~LellGEK~E   96 (120)
T PF12325_consen   18 VERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRA-LKKEVEELEQELEELQQRYQTLLELLGEKSE   96 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcchHH
Confidence            344444444445555555555555555555555555444444444311 1122233444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005055          639 QALSAQEEVEEWKRKYGVA  657 (716)
Q Consensus       639 ql~~ak~E~~~w~~kY~~~  657 (716)
                      +.+..+.++.+-|.=|...
T Consensus        97 ~veEL~~Dv~DlK~myr~Q  115 (120)
T PF12325_consen   97 EVEELRADVQDLKEMYREQ  115 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444433

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=94.19  E-value=0.074  Score=53.87  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999874

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=94.18  E-value=0.054  Score=59.51  Aligned_cols=51  Identities=16%  Similarity=0.274  Sum_probs=36.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce-EEeeccccccccCCCCceeEEE
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG-LWLWSAPLKRTALDGTEYNLLL  132 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG-IWmw~~p~~~~~~~g~~~~vvl  132 (716)
                      -+++++||.++||||||..|+|-.          +.|.| |++-+.++..-.|....+.+||
T Consensus        32 ef~~lLGPSGcGKTTlLR~IAGfe----------~p~~G~I~l~G~~i~~lpp~kR~ig~VF   83 (352)
T COG3842          32 EFVTLLGPSGCGKTTLLRMIAGFE----------QPSSGEILLDGEDITDVPPEKRPIGMVF   83 (352)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC----------CCCCceEEECCEECCCCChhhcccceee
Confidence            479999999999999999999854          34555 7776665544444444455554

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=94.17  E-value=0.07  Score=63.48  Aligned_cols=26  Identities=31%  Similarity=0.511  Sum_probs=22.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .++. |+|+|...+|||||+|+|+...
T Consensus        23 ~~~~-i~iiGh~~~GKSTL~~~Ll~~~   48 (632)
T PRK05506         23 SLLR-FITCGSVDDGKSTLIGRLLYDS   48 (632)
T ss_pred             CeeE-EEEECCCCCChHHHHHHHHHHh
Confidence            4565 6699999999999999999654

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=94.17  E-value=0.13  Score=60.47  Aligned_cols=23  Identities=26%  Similarity=0.587  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+++|....|||+|+|.|.|..
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~   24 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIA   24 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            79999999999999999999853

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.

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=94.16  E-value=15  Score=44.21  Aligned_cols=81  Identities=11%  Similarity=0.158  Sum_probs=39.0

Q ss_pred             HHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 005055          568 NLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEV  647 (716)
Q Consensus       568 ~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~  647 (716)
                      .|+.++.....++..+...|..++.+..+...+|.+....-+.....+..++..++..+..-++++..++..+..+..-+
T Consensus       356 iLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri~~LE~ELr~l~~~A  435 (717)
T PF09730_consen  356 ILECKYKVAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERISELEKELRALSKLA  435 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555555554443333333344444444444433333445555555555444444


Q ss_pred             H
Q 005055          648 E  648 (716)
Q Consensus       648 ~  648 (716)
                      .
T Consensus       436 ~  436 (717)
T PF09730_consen  436 G  436 (717)
T ss_pred             H
Confidence            4

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=94.15  E-value=10  Score=41.20  Aligned_cols=189  Identities=16%  Similarity=0.219  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHH----HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005055          500 DLVKRLIDQIGSERSSLMLKYRSIEDNMKLLK----KQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENIS  575 (716)
Q Consensus       500 ~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~----k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~  575 (716)
                      +..+.-.++....+..|+.=|+.++..-..++    +..++.+..-.++...|+..|.|+...+++....+..+......
T Consensus        60 ~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~eee~kR~el~~kFq~~L~dIq~~~ee~~~~~~k~~~eN~~  139 (309)
T PF09728_consen   60 DQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREEEEKRKELSEKFQATLKDIQAQMEEQSERNIKLREENEE  139 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHH


Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH-------HHHHHHHHHHHHHHHHH
Q 005055          576 LREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEA-------RLAAAREQALSAQEEVE  648 (716)
Q Consensus       576 le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~ee-------rl~~~~~ql~~ak~E~~  648 (716)
                      |.+++..+.+|.+.-+.+.....+.-+--++=..+--+......+....+.....+       ++..+..+-...+....
T Consensus       140 L~eKlK~l~eQye~rE~~~~~~~k~keLE~Ql~~AKl~q~~~~~~~e~~k~~~~~~~~l~~~~~~~~~~~~E~~Lr~QL~  219 (309)
T PF09728_consen  140 LREKLKSLIEQYELREEHFEKLLKQKELEVQLAEAKLEQQQEEAEQEKEKAKQEKEILLEEAAQVQTLKETEKELREQLN  219 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHH
Q 005055          649 EWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREE  689 (716)
Q Consensus       649 ~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~  689 (716)
                      -|-.||+..- ++=+-=...-.+|++=++.+..+=+.|..|
T Consensus       220 ~Y~~Kf~efq-~tL~kSNe~F~tfk~Emekm~Kk~kklEKE  259 (309)
T PF09728_consen  220 LYSEKFEEFQ-DTLNKSNEVFETFKKEMEKMSKKIKKLEKE  259 (309)
T ss_pred             HHHHHHHHHH-HHHHHhHHHHHHHHHHHHHHHHHHHHHHHH

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=94.14  E-value=20  Score=46.70  Aligned_cols=29  Identities=0%  Similarity=0.060  Sum_probs=18.5

Q ss_pred             HHHhhHHhHHHHHHHHHHHHHHHHHHHHH
Q 005055          579 KSSSLSKTVDSLKNEISDWKRKYDQVLTK  607 (716)
Q Consensus       579 ~~~~~~~~le~~k~e~~e~~r~y~~~i~~  607 (716)
                      .+......|+.......+|...|++++.-
T Consensus       845 ~l~~~~~aL~~y~~~l~~l~~~~~~L~~A  873 (1353)
T TIGR02680       845 ALEAVGLALKRFGDHLHTLEVAVRELRHA  873 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445666666667777777777776543

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=94.13  E-value=0.047  Score=58.82  Aligned_cols=36  Identities=22%  Similarity=0.348  Sum_probs=28.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce-EEeecccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG-LWLWSAPL  118 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG-IWmw~~p~  118 (716)
                      +++|+|+.++||||||+.|+|..          +.|.| ||+++.++
T Consensus        30 i~~l~G~NGaGKTTLl~~l~Gl~----------~~~~G~i~i~g~~~   66 (301)
T TIGR03522        30 IVGFLGPNGAGKSTTMKIITGYL----------PPDSGSVQVCGEDV   66 (301)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC----------CCCceEEEECCEEc
Confidence            79999999999999999999874          12344 77777654

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=94.11  E-value=3.6  Score=45.47  Aligned_cols=28  Identities=14%  Similarity=0.145  Sum_probs=16.1

Q ss_pred             HhhcHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          519 KYRSIEDNMKLLKKQLEDSERYKSEYLK  546 (716)
Q Consensus       519 k~~s~e~e~~~l~k~~e~~~~~~~~~~k  546 (716)
                      ..+-+++++..+++++++.+....++++
T Consensus       171 a~~fl~~ql~~~~~~l~~ae~~l~~fr~  198 (362)
T TIGR01010       171 TIAFAENEVKEAEQRLNATKAELLKYQI  198 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445556666666666666655555544

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.10  E-value=0.053  Score=63.05  Aligned_cols=43  Identities=23%  Similarity=0.254  Sum_probs=37.1

Q ss_pred             CceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           52 GKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        52 ~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..|-+--.|+++|..-+.++.||+|+|+.++|||||++.|.+.
T Consensus        46 ~g~~~~ira~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         46 KGFFVVIRACQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             cchhhhhHHHHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            4577777888888877777889999999999999999999875

>TIGR00484 EF-G translation elongation factor EF-G

Probab=94.09  E-value=0.21  Score=60.09  Aligned_cols=26  Identities=12%  Similarity=0.178  Sum_probs=22.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..|--|+|+|...+|||||+|+|++.
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~   33 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFY   33 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHh
Confidence            35667999999999999999999854

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.

>cd04121 Rab40 Rab40 subfamily

Probab=94.06  E-value=0.098  Score=52.50  Aligned_cols=59  Identities=25%  Similarity=0.284  Sum_probs=40.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||+|++++.+..  |.-   ..+.|.|+-+....+.   .++..+.+-|.||.|.+
T Consensus         8 KivviG~~~vGKTsll~~~~~~~--~~~---~~~~t~~~~~~~~~i~---~~~~~~~l~iwDt~G~~   66 (189)
T cd04121           8 KFLLVGDSDVGKGEILASLQDGS--TES---PYGYNMGIDYKTTTIL---LDGRRVKLQLWDTSGQG   66 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CCC---CCCCcceeEEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            36699999999999999998754  531   1123555544333332   24667889999999964

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

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.05  E-value=11  Score=43.35  Aligned_cols=133  Identities=23%  Similarity=0.243  Sum_probs=81.8

Q ss_pred             HHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 005055          565 RINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV-----------LTKQKAMEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       565 ~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~-----------i~~~k~~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      ++..|+.+|.+|+..+...+..||.++.-..++....+..           |+.--+-...|-.+|.+|       |..|
T Consensus        44 eK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hkk~~~~g~e~EesLLqESaakE~~yl~kI~el-------eneL  116 (772)
T KOG0999|consen   44 EKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHKKVARDGEEREESLLQESAAKEEYYLQKILEL-------ENEL  116 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHhHHHHHHHHHHH-------HHHH
Confidence            4467888888888888888888888887777776554433           443333344555555544       4444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhh
Q 005055          634 AAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRSLS  707 (716)
Q Consensus       634 ~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~~~~~~~~~  707 (716)
                      .-++-.+...+.|.+..-.+.+.+- +.+++.|-.---.+--++++.-||--|=.|.+..  +-|++-|-.-.|
T Consensus       117 Kq~r~el~~~q~E~erl~~~~sd~~-e~~~~~E~qR~rlr~elKe~KfRE~RllseYSEL--EEENIsLQKqVs  187 (772)
T KOG0999|consen  117 KQLRQELTNVQEENERLEKVHSDLK-ESNAAVEDQRRRLRDELKEYKFREARLLSEYSEL--EEENISLQKQVS  187 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh-hcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhcchHHHHHH
Confidence            4555555555555666666666666 5666666666666666777777777776666543  224444443333

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=94.03  E-value=0.092  Score=52.99  Aligned_cols=62  Identities=27%  Similarity=0.338  Sum_probs=39.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      .=|.|+|+.++|||+|+|+|.+..  |.-+   .+.|.|.-....-.   .+++..+.+.++||-|...+
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~--~~~~---~~~t~~~~~~~~~~---~~~~~~~~~~~~Dt~gq~~~   67 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE--FPEG---YPPTIGNLDPAKTI---EPYRRNIKLQLWDTAGQEEY   67 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc--Cccc---CCCceeeeeEEEEE---EeCCCEEEEEeecCCCHHHH
Confidence            447899999999999999999876  4321   12333433322211   11222577899999997543

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=94.03  E-value=0.038  Score=51.62  Aligned_cols=23  Identities=35%  Similarity=0.546  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||+|++.|+|..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            78999999999999999999875

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=94.02  E-value=0.2  Score=56.58  Aligned_cols=27  Identities=30%  Similarity=0.441  Sum_probs=23.2

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .|..-|+|+|...+|||||+|+|++..
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~   30 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYET   30 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHc
Confidence            456669999999999999999999543

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=94.02  E-value=14  Score=42.33  Aligned_cols=28  Identities=14%  Similarity=0.132  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHhhHHHHH
Q 005055          660 EAKAALEKAAIVQERTSKEMQQREDVLR  687 (716)
Q Consensus       660 ~~Ka~leq~~~~~~~~~e~~q~~e~~~~  687 (716)
                      +..+.|...|.....++.++...-..|-
T Consensus       165 ~~~~~L~~qi~~L~~~n~~i~~ea~nLt  192 (475)
T PRK10361        165 QERHTLAHEIRNLQQLNAQMAQEAINLT  192 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666655555555444443333

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.96  E-value=0.053  Score=56.31  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999999864

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=93.85  E-value=0.097  Score=51.35  Aligned_cols=55  Identities=20%  Similarity=0.133  Sum_probs=37.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|.++|+.++|||+|++++....  |.  + .. .|.|+-.....       ...+.+.|.||.|..
T Consensus        14 ~ki~l~G~~~~GKTsL~~~~~~~~--~~--~-~~-~t~~~~~~~~~-------~~~~~l~l~D~~G~~   68 (175)
T smart00177       14 MRILMVGLDAAGKTTILYKLKLGE--SV--T-TI-PTIGFNVETVT-------YKNISFTVWDVGGQD   68 (175)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcCC--CC--C-cC-CccccceEEEE-------ECCEEEEEEECCCCh
Confidence            348899999999999999996433  41  1 22 35565433211       124789999999953

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).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=93.81  E-value=0.095  Score=50.54  Aligned_cols=53  Identities=21%  Similarity=0.216  Sum_probs=34.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|..++|||+|++++....  |. .  . ..|.|.-...  +     ....+.+.|.||.|.+
T Consensus         3 v~~~G~~~~GKTsli~~l~~~~--~~-~--~-~pt~g~~~~~--~-----~~~~~~~~l~D~~G~~   55 (159)
T cd04150           3 ILMVGLDAAGKTTILYKLKLGE--IV-T--T-IPTIGFNVET--V-----EYKNISFTVWDVGGQD   55 (159)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--Cc-c--c-CCCCCcceEE--E-----EECCEEEEEEECCCCH
Confidence            6789999999999999996543  53 1  1 2344542211  1     1234789999999964

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

>PRK01156 chromosome segregation protein; Provisional

Probab=93.77  E-value=24  Score=43.97  Aligned_cols=129  Identities=16%  Similarity=0.183  Sum_probs=60.4

Q ss_pred             HhhcHHHHHHHHHHHHHHHHHHHHHHHHhH-------HHHHHHHHHHHHHH---HHHHHHHHHHhhhHHHHHHhhHHhHH
Q 005055          519 KYRSIEDNMKLLKKQLEDSERYKSEYLKRY-------DDAINDKKKLADDY---TSRINNLQGENISLREKSSSLSKTVD  588 (716)
Q Consensus       519 k~~s~e~e~~~l~k~~e~~~~~~~~~~k~l-------ee~i~dlk~~~e~~---~~~~~~l~~k~~~le~~~~~~~~~le  588 (716)
                      +++....++..+...++.....+......|       +..+.+++....++   ..++...+.++..++.++..+..+++
T Consensus       581 ~~~~~~~~l~e~~~~l~~l~~~l~~le~~~~~~~~~~~~~~~~le~~~~~le~~~~~l~~~~~~i~~~~~~i~~l~~~i~  660 (895)
T PRK01156        581 DIETNRSRSNEIKKQLNDLESRLQEIEIGFPDDKSYIDKSIREIENEANNLNNKYNEIQENKILIEKLRGKIDNYKKQIA  660 (895)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444455555544444444434333211       13333443333322   22223334444455555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          589 SLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       589 ~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      ..+....++. ..+..++........+.+++..++.....+++++..+.+++...+++..
T Consensus       661 ~l~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~~~~l~eel~  719 (895)
T PRK01156        661 EIDSIIPDLK-EITSRINDIEDNLKKSRKALDDAKANRARLESTIEILRTRINELSDRIN  719 (895)
T ss_pred             HHHhhhhhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            4444333331 1222234444444556666666666666666666666666655555554

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=93.76  E-value=0.1  Score=53.84  Aligned_cols=57  Identities=19%  Similarity=0.300  Sum_probs=38.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++.+..  |.-  ...|+.-..|.+  ++.   .+|..+.+-|.||.|..
T Consensus         4 IvvvGd~~vGKTsLi~~~~~~~--f~~--~y~pTi~~~~~~--~~~---~~~~~v~L~iwDt~G~e   60 (222)
T cd04173           4 IVVVGDAECGKTALLQVFAKDA--YPG--SYVPTVFENYTA--SFE---IDKRRIELNMWDTSGSS   60 (222)
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC--ccCCccccceEE--EEE---ECCEEEEEEEEeCCCcH
Confidence            5799999999999999999765  642  222322223322  222   35667889999999954

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

>TIGR00235 udk uridine kinase

Probab=93.73  E-value=0.051  Score=55.13  Aligned_cols=28  Identities=14%  Similarity=0.250  Sum_probs=24.1

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +.+-.||+|+|+.++|||||++.|.+.-
T Consensus         3 ~~~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         3 KPKGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455789999999999999999998763

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=93.70  E-value=4.1  Score=37.05  Aligned_cols=84  Identities=20%  Similarity=0.274  Sum_probs=43.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Q 005055          546 KRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVL  622 (716)
Q Consensus       546 k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l  622 (716)
                      ..++..|.+.+.-.+++..+...       |+....+|..+-++..+-+.+++++|.++   +++.|-.+.++++++...
T Consensus        19 a~Le~slE~~K~S~~eL~kqkd~-------L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~eK~ak~~l~~r~~k~   91 (107)
T PF09304_consen   19 ASLERSLEDEKTSQGELAKQKDQ-------LRNALQSLQAQNASRNQRIAELQAKIDEARRNLEDEKQAKLELESRLLKA   91 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444443333       44444444444555555555555555555   344444455666666666


Q ss_pred             HhhhHHHHHHHHHH
Q 005055          623 KSRSTAAEARLAAA  636 (716)
Q Consensus       623 ~~r~~~~eerl~~~  636 (716)
                      +.....+|=+++++
T Consensus        92 ~~dka~lel~l~e~  105 (107)
T PF09304_consen   92 QKDKAILELKLAEA  105 (107)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHhh
Confidence            66666666555443

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=93.69  E-value=10  Score=39.49  Aligned_cols=126  Identities=18%  Similarity=0.250  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 005055          558 LADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAR  637 (716)
Q Consensus       558 ~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~  637 (716)
                      +.++++.++..++.....|..+...+++.++...-+--.-....+.-+..-++.++++...|.+|+++-..+|-      
T Consensus        53 qL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLEr------  126 (333)
T KOG1853|consen   53 QLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLER------  126 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHH------
Confidence            34444444444444444444444444444444333332223333333555666677777777766665554441      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHH---HHHHHH
Q 005055          638 EQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDV---LREEFS  691 (716)
Q Consensus       638 ~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~---~~~~~~  691 (716)
                       .-...-=-+++.-++..+++ +--|-||-+.--.+-+++.+|---|+   ||.|++
T Consensus       127 -akRati~sleDfeqrLnqAI-ErnAfLESELdEke~llesvqRLkdEardlrqela  181 (333)
T KOG1853|consen  127 -AKRATIYSLEDFEQRLNQAI-ERNAFLESELDEKEVLLESVQRLKDEARDLRQELA  181 (333)
T ss_pred             -hhhhhhhhHHHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             11111112445556667777 66677777777777777777754443   555543

>PRK00300 gmk guanylate kinase; Provisional

Probab=93.62  E-value=0.057  Score=54.30  Aligned_cols=27  Identities=26%  Similarity=0.364  Sum_probs=23.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSS   96 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~   96 (716)
                      |=-+|+|+|+.++|||+|++.|++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            345799999999999999999998753

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=93.61  E-value=2.7  Score=38.21  Aligned_cols=76  Identities=17%  Similarity=0.322  Sum_probs=39.3

Q ss_pred             HHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 005055          566 INNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQE  645 (716)
Q Consensus       566 ~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~  645 (716)
                      ...|.....+++.++.++...|+..|....+|.+.=           +.|.+....|+....+..-|+.++++++..+..
T Consensus         4 ~~~l~as~~el~n~La~Le~slE~~K~S~~eL~kqk-----------d~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~   72 (107)
T PF09304_consen    4 KEALEASQNELQNRLASLERSLEDEKTSQGELAKQK-----------DQLRNALQSLQAQNASRNQRIAELQAKIDEARR   72 (107)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHhH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345667778888888888888888888888884433           334444444444444444444444444444444


Q ss_pred             HHHHHHH
Q 005055          646 EVEEWKR  652 (716)
Q Consensus       646 E~~~w~~  652 (716)
                      ..+.-|.
T Consensus        73 ~le~eK~   79 (107)
T PF09304_consen   73 NLEDEKQ   79 (107)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4554333

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=93.55  E-value=19  Score=42.17  Aligned_cols=145  Identities=15%  Similarity=0.212  Sum_probs=81.1

Q ss_pred             HHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHH
Q 005055          513 RSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKN  592 (716)
Q Consensus       513 ~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~  592 (716)
                      ...+..+++.+++++..+..-+++...........|++...=...++.-++.+...-+...-.+|.++..+..|+.....
T Consensus       191 ~~~~~~q~~~le~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~  270 (629)
T KOG0963|consen  191 EQNLQEQLEELEKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANS  270 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            44455666777777777777777777666666666666655555555555555444444444444444444444433222


Q ss_pred             ---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          593 ---------------EISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVA  657 (716)
Q Consensus       593 ---------------e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~  657 (716)
                                     -.....+...++.++.+..+..+...++..+..++++|..+.+....+...+..+..+ ..|+.+
T Consensus       271 ~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~~-sDYeeI  349 (629)
T KOG0963|consen  271 SKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEEREKHKAQISALEKELKAKISELEELKEKLNSR-SDYEEI  349 (629)
T ss_pred             hhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-ccHHHH
Confidence                           2223344555555565555666666666555556666666666666655555555544 456554


Q ss_pred             H
Q 005055          658 V  658 (716)
Q Consensus       658 ~  658 (716)
                      =
T Consensus       350 K  350 (629)
T KOG0963|consen  350 K  350 (629)
T ss_pred             H
Confidence            4

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=93.54  E-value=0.27  Score=59.68  Aligned_cols=93  Identities=16%  Similarity=0.270  Sum_probs=49.7

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhH
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQ  150 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~  150 (716)
                      ..+|+|+|....|||+|+|+|.+..  |.-+.. ...|..|-.+..++     ++  ..+.|+||+|..++..     .+
T Consensus       290 ~pvV~ImGhvd~GKTSLl~~Lr~~~--v~~~e~-~GIT~~iga~~v~~-----~~--~~ItfiDTPGhe~F~~-----m~  354 (787)
T PRK05306        290 PPVVTIMGHVDHGKTSLLDAIRKTN--VAAGEA-GGITQHIGAYQVET-----NG--GKITFLDTPGHEAFTA-----MR  354 (787)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhCC--cccccc-CceeeeccEEEEEE-----CC--EEEEEEECCCCccchh-----HH
Confidence            3579999999999999999998654  332211 11122111111111     12  5688999999754321     12


Q ss_pred             HHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          151 IFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       151 IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      .-.....=.-++||.....+..+..+.+
T Consensus       355 ~rga~~aDiaILVVdAddGv~~qT~e~i  382 (787)
T PRK05306        355 ARGAQVTDIVVLVVAADDGVMPQTIEAI  382 (787)
T ss_pred             HhhhhhCCEEEEEEECCCCCCHhHHHHH
Confidence            1111111112567776554555544443

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=93.51  E-value=14  Score=40.36  Aligned_cols=47  Identities=19%  Similarity=0.246  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH
Q 005055          558 LADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV  604 (716)
Q Consensus       558 ~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~  604 (716)
                      ..+++-.+...++.++..|+..+.++.+..+.+..|..-|+.+-+++
T Consensus       127 ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RL  173 (319)
T PF09789_consen  127 EREDLVEQLEKLREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRL  173 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444455555555555555555555555555555555555544

>PRK00049 elongation factor Tu; Reviewed

Probab=93.50  E-value=0.19  Score=56.36  Aligned_cols=26  Identities=19%  Similarity=0.265  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|..-|+|+|...+|||+|++.|++.
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~   35 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKV   35 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHh
Confidence            45666999999999999999999973

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=93.50  E-value=16  Score=44.42  Aligned_cols=126  Identities=19%  Similarity=0.229  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------hHHHHHHHHHHHHHHHHHHH--------HHHHHHhhhHHHHHHhhHHhH
Q 005055          523 IEDNMKLLKKQLEDSERYKSEYLK-------RYDDAINDKKKLADDYTSRI--------NNLQGENISLREKSSSLSKTV  587 (716)
Q Consensus       523 ~e~e~~~l~k~~e~~~~~~~~~~k-------~lee~i~dlk~~~e~~~~~~--------~~l~~k~~~le~~~~~~~~~l  587 (716)
                      ++.++..|++++++..+....++.       -|.+-+.||+.-.|+-..++        ..+..-...||.++.-+.++|
T Consensus        22 ae~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~~~~~s~e~e~~~~~le~~l~e~~~~l  101 (769)
T PF05911_consen   22 AEAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEAVAKKSKEWEKIKSELEAKLAELSKRL  101 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            455556666666665544433333       34555555533333333333        566666678899999999999


Q ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          588 DSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       588 e~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      ..+..|..-+.+-.++-   |-+....+......|.+|+.|+...|-.+++|.=++.....|.+
T Consensus       102 ~~~~~e~~~l~~~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~kele  165 (769)
T PF05911_consen  102 AESAAENSALSKALQEKEKLIAELSEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLSKELE  165 (769)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999988877766553   66666666777777777777777777777777777777666665

The function of this family is unknown.

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=93.50  E-value=8.8  Score=38.19  Aligned_cols=42  Identities=17%  Similarity=0.197  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHH
Q 005055          559 ADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK  600 (716)
Q Consensus       559 ~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~  600 (716)
                      ..++..+.+..+..|+-||-++...++.+.++++|......+
T Consensus        59 ~~dl~~qL~aAEtRCslLEKQLeyMRkmv~~ae~er~~~le~  100 (178)
T PF14073_consen   59 NQDLSSQLSAAETRCSLLEKQLEYMRKMVESAEKERNAVLEQ  100 (178)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            557777778888888888888888888888888776655544

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.47  E-value=0.054  Score=62.39  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|+|+|+.|+||||++..|.+
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999875

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=93.45  E-value=0.3  Score=56.16  Aligned_cols=28  Identities=25%  Similarity=0.481  Sum_probs=22.9

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+..-|+|+|...+|||||+++|+...
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~   51 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDT   51 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhc
Confidence            3445557899999999999999998654

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=93.44  E-value=22  Score=42.63  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.0

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      -.|+.|+|+.++|||+||+.+.
T Consensus        28 ~~~~~i~G~Ng~GKttll~ai~   49 (650)
T TIGR03185        28 KPIILIGGLNGAGKTTLLDAIQ   49 (650)
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3477899999999999999963

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=93.43  E-value=0.074  Score=56.28  Aligned_cols=23  Identities=30%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|.|..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         29 VTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            79999999999999999999864

>cd04126 Rab20 Rab20 subfamily

Probab=93.42  E-value=0.13  Score=52.94  Aligned_cols=53  Identities=25%  Similarity=0.420  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.  . . ..|.|.-+....+       ..+.+.++||.|..
T Consensus         3 IvivG~~~vGKTSLi~r~~~~~--f~--~-~-~~Tig~~~~~~~~-------~~~~l~iwDt~G~e   55 (220)
T cd04126           3 VVLLGDMNVGKTSLLHRYMERR--FK--D-T-VSTVGGAFYLKQW-------GPYNISIWDTAGRE   55 (220)
T ss_pred             EEEECCCCCcHHHHHHHHhcCC--CC--C-C-CCccceEEEEEEe-------eEEEEEEEeCCCcc
Confidence            6799999999999999999876  63  1 2 2355543332221       23678999999964

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=93.38  E-value=0.14  Score=53.26  Aligned_cols=58  Identities=24%  Similarity=0.252  Sum_probs=39.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||.|++++.+..  |.-  ...| |.|.-. ...+   ..+|..+.+-|.||.|..
T Consensus        15 KIvvvGd~~VGKTsLi~r~~~~~--F~~--~y~p-Ti~~~~-~~~i---~~~~~~v~l~iwDTaG~e   72 (232)
T cd04174          15 KLVLVGDVQCGKTAMLQVLAKDC--YPE--TYVP-TVFENY-TAGL---ETEEQRVELSLWDTSGSP   72 (232)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC--CCC--CcCC-ceeeee-EEEE---EECCEEEEEEEEeCCCch
Confidence            46799999999999999999765  642  2223 333322 1222   235677899999999953

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.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=93.37  E-value=0.078  Score=57.14  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        31 e~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        31 ECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999864

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=93.34  E-value=0.14  Score=49.48  Aligned_cols=56  Identities=23%  Similarity=0.374  Sum_probs=37.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|++++++..  |.-  . .+.|.|-..  ..+   ..+|..+.+.+.||-|..
T Consensus         3 i~vvG~~gvGKTsli~~~~~~~--f~~--~-~~~~~~~~~--~~i---~~~~~~~~l~i~D~~g~~   58 (158)
T cd04103           3 LGIVGNLQSGKSALVHRYLTGS--YVQ--L-ESPEGGRFK--KEV---LVDGQSHLLLIRDEGGAP   58 (158)
T ss_pred             EEEECCCCCcHHHHHHHHHhCC--CCC--C-CCCCccceE--EEE---EECCEEEEEEEEECCCCC
Confidence            6899999999999999988654  532  1 122334331  112   124666788999999863

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=93.33  E-value=0.13  Score=55.41  Aligned_cols=57  Identities=30%  Similarity=0.351  Sum_probs=37.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .+=|+.+|++..|||+|||.|.|..+-+.--+ |+--+--|+.-+         +|  ..+=+||++|+
T Consensus        63 da~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y---------~g--a~IQild~Pgi  120 (365)
T COG1163          63 DATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEY---------KG--AQIQLLDLPGI  120 (365)
T ss_pred             CeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEee---------cC--ceEEEEcCccc
Confidence            45688999999999999999999863221111 222222344432         22  56788999998

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=93.32  E-value=0.059  Score=55.58  Aligned_cols=23  Identities=26%  Similarity=0.525  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999999864

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=93.31  E-value=21  Score=42.04  Aligned_cols=36  Identities=25%  Similarity=0.162  Sum_probs=22.0

Q ss_pred             ccchhhHHH--HHHHHHHHHhcCCCCCccchHHHHHHH
Q 005055          318 VLTGPVLIG--ITESYLDAINNGAVPTISSSWQSVEEA  353 (716)
Q Consensus       318 ~ltG~~l~~--l~~~yv~ain~g~vP~i~s~~~~~~e~  353 (716)
                      .++|.....  -.+.=|+-|.+..+|.+++.+..+.+.
T Consensus        53 ~l~Gqt~~~fe~w~~~w~~i~~~~~~~ie~~L~~ae~~   90 (560)
T PF06160_consen   53 NLTGQTEEKFEEWRQKWDEIVTKQLPEIEEQLFEAEEY   90 (560)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            466665433  235556677777888888765544443

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=93.30  E-value=7.2  Score=45.34  Aligned_cols=169  Identities=14%  Similarity=0.220  Sum_probs=89.6

Q ss_pred             CCCchhHHHHHHHhhhccc------hHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005055          478 HGPGKWQKLATFLQQSSEG------PILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDA  551 (716)
Q Consensus       478 ~GP~K~~~L~~FLq~~~~~------~il~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~  551 (716)
                      .+|.....+.+||+.....      +=....+--..+.+..++.|.++..-+-+.++.-.+++       ..++-+++++
T Consensus        79 P~~~taa~i~eWles~~p~~~~~s~~~~~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKI-------rDLE~cie~k  151 (861)
T KOG1899|consen   79 PDPQTAARIAEWLESPSPSMSTVSCPEYPEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKI-------RDLETCIEEK  151 (861)
T ss_pred             CCchHHHHHHHHHhccCCCCCCccCCcchHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhH-------HHHHHHHHHH
Confidence            4555566677777644431      00111122223445555555555554444444444444       3344444444


Q ss_pred             HHHHHHHHHHHH---HHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHH-HHHHHHHHHHHh
Q 005055          552 INDKKKLADDYT---SRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAME-DQVCSEIEVLKS  624 (716)
Q Consensus       552 i~dlk~~~e~~~---~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~-~~~~~~i~~l~~  624 (716)
                      -+.|...-|.+.   -.++.|++++=.|=.+++.|+=.+-+.++|..|+++++-..   ++...+.+ ..+..+--..+.
T Consensus       152 r~kLnatEEmLQqellsrtsLETqKlDLmaevSeLKLkltalEkeq~e~E~K~R~se~l~qevn~~kv~e~~~erlqye~  231 (861)
T KOG1899|consen  152 RNKLNATEEMLQQELLSRTSLETQKLDLMAEVSELKLKLTALEKEQNETEKKLRLSENLMQEVNQSKVGEVVQERLQYET  231 (861)
T ss_pred             HhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHhHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444422222222   22366777776666777777777777777776666655433   44332221 223333334555


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          625 RSTAAEARLAAAREQALSAQEEVEEWKRK  653 (716)
Q Consensus       625 r~~~~eerl~~~~~ql~~ak~E~~~w~~k  653 (716)
                      ++.+.-+.++.+++|+.....|...+.++
T Consensus       232 klkstk~e~a~L~Eq~~eK~~e~~rl~~~  260 (861)
T KOG1899|consen  232 KLKSTKGEMAPLREQRSEKNDEEMRLLRT  260 (861)
T ss_pred             hcccccchhhhHHHHHhhhhhHHHHHHHH
Confidence            66677777888888887777777755443

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=93.27  E-value=18  Score=40.96  Aligned_cols=19  Identities=26%  Similarity=0.571  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHh
Q 005055          430 YMEADIRCSSAIQSMERKLRA  450 (716)
Q Consensus       430 ~~~s~~~C~~~l~~le~~l~~  450 (716)
                      ...-..+|+++.  |+.++++
T Consensus       331 ~~IqdLq~sN~y--Le~kvke  349 (527)
T PF15066_consen  331 NRIQDLQCSNLY--LEKKVKE  349 (527)
T ss_pred             HHHHHhhhccHH--HHHHHHH
Confidence            344455677655  5666654

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=93.25  E-value=22  Score=42.11  Aligned_cols=37  Identities=14%  Similarity=0.153  Sum_probs=18.0

Q ss_pred             HHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 005055          565 RINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKY  601 (716)
Q Consensus       565 ~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y  601 (716)
                      -+..|+.-+..-..++..|..+.+..+....+--++.
T Consensus       395 ni~kL~~~v~~s~~rl~~L~~qWe~~R~pL~~e~r~l  431 (594)
T PF05667_consen  395 NIAKLQALVEASEQRLVELAQQWEKHRAPLIEEYRRL  431 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            3355555555555555555555554444433333333

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=93.23  E-value=0.31  Score=57.41  Aligned_cols=60  Identities=22%  Similarity=0.323  Sum_probs=37.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+|+|+|...+|||+|+|+|.+..  |..+.. ...|..+-.+..++    +++  ..+.|+||+|...
T Consensus        88 p~V~I~Ghvd~GKTSLl~~l~~~~--v~~~e~-~GIT~~ig~~~v~~----~~~--~~i~~iDTPGhe~  147 (587)
T TIGR00487        88 PVVTIMGHVDHGKTSLLDSIRKTK--VAQGEA-GGITQHIGAYHVEN----EDG--KMITFLDTPGHEA  147 (587)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCC--cccccC-CceeecceEEEEEE----CCC--cEEEEEECCCCcc
Confidence            368999999999999999998764  433211 11232222222221    122  2688999999643

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=93.23  E-value=0.25  Score=55.34  Aligned_cols=104  Identities=13%  Similarity=0.205  Sum_probs=55.2

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCC--------ccccccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSS--------GFQVAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~--------gF~~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|...|+|+|...+|||+|++.|++...        ++.+... ..-..+||=+-...+..   +.....+.|+||+|..
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~---~~~~~~~~liDtpGh~   86 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEY---ETENRHYAHVDCPGHA   86 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEE---cCCCEEEEEEECCchH
Confidence            5666799999999999999999985410        1111000 00001222211111111   1123568899999963


Q ss_pred             ccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       140 ~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      .+     ....+.+++..=.-++|+.....+..+..+++.+
T Consensus        87 ~f-----~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~  122 (394)
T TIGR00485        87 DY-----VKNMITGAAQMDGAILVVSATDGPMPQTREHILL  122 (394)
T ss_pred             HH-----HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHH
Confidence            21     1233444443334466777665566666655544

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=93.23  E-value=0.28  Score=58.22  Aligned_cols=23  Identities=22%  Similarity=0.572  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+++|....|||+|+|.|.|..
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~   24 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVN   24 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999853

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=93.19  E-value=0.67  Score=37.25  Aligned_cols=52  Identities=25%  Similarity=0.353  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          612 EDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQER  674 (716)
Q Consensus       612 ~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~  674 (716)
                      .++|++.+..|.+++.++..-+.+++...+.|++|++           .+-.+|+-.+..|+|
T Consensus         5 id~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAa-----------RAN~RlDN~a~sY~K   56 (56)
T PF04728_consen    5 IDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAA-----------RANQRLDNIAQSYKK   56 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHT--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHhhHhhccC
Confidence            4678999999999999999999999999999999999           788888888888864

The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans

Probab=93.19  E-value=4.8  Score=39.46  Aligned_cols=97  Identities=18%  Similarity=0.165  Sum_probs=54.9

Q ss_pred             HHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHH
Q 005055          513 RSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKN  592 (716)
Q Consensus       513 ~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~  592 (716)
                      ...|+...+.+......-++.-...+....+.+..+++...+|..+++++.+++..|+.++.++.+..+.+..+=...+.
T Consensus        52 ~~~L~~d~e~L~~q~~~ek~~r~~~e~~l~~~Ed~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~~  131 (158)
T PF09744_consen   52 LELLREDNEQLETQYEREKELRKQAEEELLELEDQWRQERKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELKK  131 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHHH
Confidence            33444444444444444444444444455555667777777777777777777777777766666655555554444444


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 005055          593 EISDWKRKYDQVLTKQK  609 (716)
Q Consensus       593 e~~e~~r~y~~~i~~~k  609 (716)
                      +-.....+|-+.+...+
T Consensus       132 e~~~l~er~~e~l~~~~  148 (158)
T PF09744_consen  132 EYNRLHERERELLRKLK  148 (158)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444444444444443

Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=93.16  E-value=0.074  Score=55.21  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .|+|+|..++||||||+.|.|.-
T Consensus        55 ~vGiiG~NGaGKSTLlkliaGi~   77 (249)
T COG1134          55 RVGIIGHNGAGKSTLLKLIAGIY   77 (249)
T ss_pred             EEEEECCCCCcHHHHHHHHhCcc
Confidence            68999999999999999999864

>COG0218 Predicted GTPase [General function prediction only]

Probab=93.14  E-value=0.18  Score=50.93  Aligned_cols=59  Identities=24%  Similarity=0.331  Sum_probs=39.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ...=|+.+|....|||+|+|.|.|+..--.++.|. ..|.=|=.+..       ++   .+.|+|.+|.|
T Consensus        23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktP-GrTq~iNff~~-------~~---~~~lVDlPGYG   81 (200)
T COG0218          23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTP-GRTQLINFFEV-------DD---ELRLVDLPGYG   81 (200)
T ss_pred             CCcEEEEEccCcccHHHHHHHHhCCcceeecCCCC-CccceeEEEEe-------cC---cEEEEeCCCcc
Confidence            44568999999999999999999976433343332 23444433211       21   27789999986

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=93.13  E-value=0.17  Score=50.45  Aligned_cols=58  Identities=24%  Similarity=0.302  Sum_probs=38.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||.|++++++..  |.-  ...| |.|.-. ...+   ..++..+.+-+.||.|..
T Consensus         7 KivvvGd~~vGKTsli~~~~~~~--f~~--~~~p-T~~~~~-~~~~---~~~~~~~~l~iwDtaG~e   64 (182)
T cd04172           7 KIVVVGDSQCGKTALLHVFAKDC--FPE--NYVP-TVFENY-TASF---EIDTQRIELSLWDTSGSP   64 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CCC--ccCC-ceeeee-EEEE---EECCEEEEEEEEECCCch
Confidence            38899999999999999999765  532  1122 333221 1122   125667889999999953

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=93.12  E-value=0.19  Score=59.28  Aligned_cols=65  Identities=14%  Similarity=0.250  Sum_probs=41.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCC---------CcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTH---------RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~---------~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|+|+|...+|||+|+++|+.....|.-...+         .-.++||=+-+.....   +..++.+-|+||+|..+
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v---~~~~~kinlIDTPGh~D   76 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAI---RYNGTKINIVDTPGHAD   76 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEE---EECCEEEEEEECCCHHH
Confidence            38999999999999999999765445332211         1124566554432211   12347788999999754

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.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.10  E-value=0.07  Score=54.56  Aligned_cols=32  Identities=31%  Similarity=0.397  Sum_probs=25.0

Q ss_pred             HhhccCCCEE---EEEeeCCCCCChhHHHHHhhCC
Q 005055           63 ALQLVKEPIG---VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        63 ~L~~i~~pV~---VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|..|+-.|.   ||+|+||.+|||||||..|-+-
T Consensus        17 VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          17 VLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             EecCcceeEcCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4555554443   8999999999999999988764

>TIGR00503 prfC peptide chain release factor 3

Probab=93.07  E-value=0.27  Score=57.30  Aligned_cols=96  Identities=15%  Similarity=0.252  Sum_probs=52.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCC---------------cccceEEeeccccccccCCCCceeEEEE
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHR---------------PCTKGLWLWSAPLKRTALDGTEYNLLLL  133 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~---------------~~TkGIWmw~~p~~~~~~~g~~~~vvlL  133 (716)
                      ..+--|+|+|...+|||+|+++|+-........+++.               -.++||=+.+.....   +...+.+.|+
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~---~~~~~~inli   85 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF---PYRDCLVNLL   85 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEE---eeCCeEEEEE
Confidence            3456799999999999999999873321111101110               113455544432221   2234788999


Q ss_pred             eCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCch
Q 005055          134 DSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE  172 (716)
Q Consensus       134 DTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e  172 (716)
                      ||+|..++.    .+++- +|...=+-++|+.....+..
T Consensus        86 DTPG~~df~----~~~~~-~l~~aD~aIlVvDa~~gv~~  119 (527)
T TIGR00503        86 DTPGHEDFS----EDTYR-TLTAVDNCLMVIDAAKGVET  119 (527)
T ss_pred             ECCChhhHH----HHHHH-HHHhCCEEEEEEECCCCCCH
Confidence            999974221    12222 34443344566666554443

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.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.06  E-value=1.4  Score=47.88  Aligned_cols=52  Identities=13%  Similarity=0.295  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHH
Q 005055          549 DDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRK  600 (716)
Q Consensus       549 ee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~  600 (716)
                      .+.+.++.++++.+..+...+..+...+|.+...+.+++...+.+..+....
T Consensus        42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~e   93 (314)
T PF04111_consen   42 EEDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEE   93 (314)
T ss_dssp             HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555555555555555555555555555554444433

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=93.04  E-value=0.068  Score=56.28  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -|++|+||.++||||||..|.|-.
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            379999999999999999999853

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=93.03  E-value=0.07  Score=54.23  Aligned_cols=24  Identities=33%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999999864

>PLN03127 Elongation factor Tu; Provisional

Probab=93.02  E-value=0.43  Score=54.47  Aligned_cols=27  Identities=19%  Similarity=0.256  Sum_probs=22.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..|..-|+|+|-..+|||+|+|.|.|.
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~   84 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKV   84 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhH
Confidence            455566999999999999999999743

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=93.02  E-value=0.072  Score=53.07  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=92.98  E-value=0.072  Score=53.88  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999999864

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=92.98  E-value=35  Score=43.55  Aligned_cols=121  Identities=18%  Similarity=0.249  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHHHHH----------HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          551 AINDKKKLADDYTSRI----------NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIE  620 (716)
Q Consensus       551 ~i~dlk~~~e~~~~~~----------~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~  620 (716)
                      .+....+.+++..++.          ..++.+.+.+.++...++++++.+++++.+-.+....+++- +......+..|+
T Consensus       796 d~~~~~k~ie~~~s~l~~~~d~i~t~~E~~~Ek~~~~~~~~~~rke~E~~~k~~~~~~~~i~~l~~~-~~e~k~~~~~~~  874 (1294)
T KOG0962|consen  796 DLKLREKEIEELVSELDSSVDGIRTVDELRKEKSKKQESLDKLRKEIECLQKEVIEQEREISRLINL-RNELKEEKQKIE  874 (1294)
T ss_pred             HHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            3333355555555554          56778888888888899999999999988888777776432 222333444444


Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005055          621 VLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTS  676 (716)
Q Consensus       621 ~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~  676 (716)
                      ..=.+...+++++..+.+......++..+-..+..    ..+..|+...+.|+++-
T Consensus       875 ~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~----~~~~~l~e~~s~~e~~k  926 (1294)
T KOG0962|consen  875 RSLARLQQLEEDIEELSEEITRLDSKVKELLERIQ----PLKVELEEAQSEKEELK  926 (1294)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhc----chhhhHHHHHHHHHHHH
Confidence            44455666666666666666665555553333222    22334444444444433

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=92.91  E-value=0.15  Score=53.36  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        30 e~~~l~G~nGsGKSTLl~~l~Gl~   53 (254)
T PRK10418         30 RVLALVGGSGSGKSLTCAAALGIL   53 (254)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999974

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=92.91  E-value=11  Score=37.47  Aligned_cols=29  Identities=31%  Similarity=0.393  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSE  538 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~  538 (716)
                      ..+++.+|.+.-.+...+..+..++...+
T Consensus         5 ~~~i~~~Rl~~~~lk~~l~k~~~ql~~ke   33 (177)
T PF13870_consen    5 RNEISKLRLKNITLKHQLAKLEEQLRQKE   33 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566677777777777777777765554

>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins

Probab=92.89  E-value=13  Score=38.52  Aligned_cols=182  Identities=11%  Similarity=0.173  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHhcccCCCchhHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHh
Q 005055          441 IQSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKY  520 (716)
Q Consensus       441 l~~le~~l~~~~~~~~~~~~~~~~~l~~ll~eY~~~~~GP~K~~~L~~FLq~~~~~~il~~~k~l~~~i~~e~~~l~~k~  520 (716)
                      +..|..++..+..... .+..|.+....+..+|-..         |...-++...++=........+.+..+...+-..=
T Consensus         7 ~~~l~~r~~~g~~~~~-el~~f~keRa~iE~eYak~---------L~kLakk~~~~~~~gsl~~a~~~i~~e~e~~a~~H   76 (236)
T cd07651           7 FDVIQTRIKDSLRTLE-ELRSFYKERASIEEEYAKR---------LEKLSRKSLGGSEEGGLKNSLDTLRLETESMAKSH   76 (236)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH---------HHHHHccccCCCCcchHHHHHHHHHHHHHHHHHHH


Q ss_pred             hcHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH----HHHHHHhhhHH-----------HHHHhhH
Q 005055          521 RSIEDNMK-LLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRI----NNLQGENISLR-----------EKSSSLS  584 (716)
Q Consensus       521 ~s~e~e~~-~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~----~~l~~k~~~le-----------~~~~~~~  584 (716)
                      ..+-..+. .+...+......+....+..+..+..+.+.........    ..|...|..++           .+..-+.
T Consensus        77 ~~~a~~L~~~v~~~l~~~~~~~~~~rK~~~~~~~k~~k~~~~~~~~l~KaK~~Y~~~c~~~e~~~~~~~~~~~ke~eK~~  156 (236)
T cd07651          77 LKFAKQIRQDLEEKLAAFASSYTQKRKKIQSHMEKLLKKKQDQEKYLEKAREKYEADCSKINSYTLQSQLTWGKELEKNN  156 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHcccCcchHHHHH


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEAR  632 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eer  632 (716)
                      ..++.++.++..-+..|+..++........+...+...=.+++.+|+.
T Consensus       157 ~k~~k~~~~~~~~~~~Y~~~v~~~~~~~~~~~~~~~~~~~~~Q~lEe~  204 (236)
T cd07651         157 AKLNKAQSSINSSRRDYQNAVKALRELNEIWNREWKAALDDFQDLEEE  204 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation

>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]

Probab=92.89  E-value=0.068  Score=52.10  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.7

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-+|+|+|+-+||||+|.|+|+..
T Consensus         8 ~K~VailG~ESsGKStLv~kLA~~   31 (187)
T COG3172           8 VKTVAILGGESSGKSTLVNKLANI   31 (187)
T ss_pred             heeeeeecCcccChHHHHHHHHHH
Confidence            568999999999999999999854

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=92.84  E-value=0.074  Score=52.99  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|.|..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            78999999999999999999864

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13351 elongation factor G; Reviewed

Probab=92.84  E-value=0.25  Score=59.42  Aligned_cols=25  Identities=16%  Similarity=0.246  Sum_probs=21.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+.-|+|+|..++|||+|+++|+..
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~   31 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFY   31 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHh
Confidence            3567899999999999999999854

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=92.83  E-value=0.078  Score=54.11  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++|||||++.|+|..
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999999863

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=92.83  E-value=0.078  Score=53.49  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=92.82  E-value=0.078  Score=54.00  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK01889 GTPase RsgA; Reviewed

Probab=92.82  E-value=0.061  Score=59.47  Aligned_cols=24  Identities=38%  Similarity=0.583  Sum_probs=21.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|..++|||+|+|.|+|..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            378999999999999999999853

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=92.82  E-value=0.057  Score=54.17  Aligned_cols=23  Identities=13%  Similarity=0.492  Sum_probs=20.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+|+|+.++|||||++.|.+.-
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999998753

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=92.82  E-value=20  Score=40.49  Aligned_cols=214  Identities=19%  Similarity=0.176  Sum_probs=0.0

Q ss_pred             ccCCCchhHHHHHHHhhhcc-----chHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 005055          476 SCHGPGKWQKLATFLQQSSE-----GPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDD  550 (716)
Q Consensus       476 ~~~GP~K~~~L~~FLq~~~~-----~~il~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee  550 (716)
                      .|+||--|.++.-+|.=.+.     +..++....+...-.-+..+...=.+=.-+....--+--+.....+++...++++
T Consensus       185 sAI~ph~Wp~iLgMlhW~V~li~~~~~~~~~~~tl~qq~~~e~~Vek~lfdY~~~~Y~~fl~~~~~~~~~e~Elk~~f~~  264 (622)
T COG5185         185 SAIGPHNWPKILGMLHWMVRLIIKLDMCLQPLKTLDQQDRYELMVEKLLFDYFTESYKSFLKLEDNYEPSEQELKLGFEK  264 (622)
T ss_pred             hccCCcchHHHHHHHHHHHHHHHHHHHHHhhhchHhhccHHHHHHHHHHHHHHHHHHHHHhcCCCccCchHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 005055          551 AINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAE  630 (716)
Q Consensus       551 ~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~e  630 (716)
                      ...++-..++....++..|..++++-+ +++.-.+.|+.-..+...-..+|+...+..|..+...-+-|..|+..|-.-|
T Consensus       265 ~~~~i~~~i~~lk~~n~~l~e~i~ea~-k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kE  343 (622)
T COG5185         265 FVHIINTDIANLKTQNDNLYEKIQEAM-KISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKE  343 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHH
Q 005055          631 ARLAAAREQALSAQ----------EEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTL  694 (716)
Q Consensus       631 erl~~~~~ql~~ak----------~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~  694 (716)
                      +.+.+++++.+..+          ++++..+++-+.+-+    .|++-...-++|-+.+-.++-..++-|.+..
T Consensus       344 eei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~r----eL~~i~~~~~~L~k~V~~~~leaq~~~~sle  413 (622)
T COG5185         344 EEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTR----ELDKINIQSDKLTKSVKSRKLEAQGIFKSLE  413 (622)
T ss_pred             HHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHH----HHHHhcchHHHHHHHHHhHHHHHHHHHHHHH

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=92.82  E-value=10  Score=45.48  Aligned_cols=69  Identities=17%  Similarity=0.218  Sum_probs=31.5

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHH
Q 005055          619 IEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE  696 (716)
Q Consensus       619 i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~  696 (716)
                      |..|+.++..+...+..+..+......|+.+..+++..+       .....+.-+.+.+. . +|+.+|..+.+.+.+
T Consensus       243 i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~L~~~~~~l~~~-~-~e~~~r~kL~N~i~e  311 (670)
T KOG0239|consen  243 IQALQQELEELKAELKELNDQVSLLTREVQEALKESNTL-------QSDLESLEENLVEK-K-KEKEERRKLHNEILE  311 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH-H-HHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444444443       33333333332222 2 666666666666543

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=92.81  E-value=27  Score=41.86  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 005055          665 LEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYL  702 (716)
Q Consensus       665 leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~~~~  702 (716)
                      |++++..--.-++-.+-.-++|+++..+.+-.|+..|-
T Consensus       554 lskE~esk~~eidi~n~qlkelk~~~~~q~lake~~yk  591 (1118)
T KOG1029|consen  554 LSKETESKLNEIDIFNNQLKELKEDVNSQQLAKEELYK  591 (1118)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444333333444455556788888888888888886

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=92.80  E-value=0.08  Score=53.57  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999864

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=92.79  E-value=0.079  Score=53.98  Aligned_cols=24  Identities=29%  Similarity=0.577  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|.|..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999999864

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=92.78  E-value=3  Score=43.83  Aligned_cols=65  Identities=25%  Similarity=0.347  Sum_probs=46.4

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHH
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVD  588 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le  588 (716)
                      +..++..++.|++.-    ++.+++..+++..+..-+++.+....+++.|.++..+|-+.|..+.+.-+
T Consensus        20 IqelE~QldkLkKE~----qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rq   84 (307)
T PF10481_consen   20 IQELEQQLDKLKKER----QQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQ   84 (307)
T ss_pred             HHHHHHHHHHHHHHH----HHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            444455444444432    55577788888888888888999999999999888888877766655433

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.76  E-value=0.15  Score=49.09  Aligned_cols=59  Identities=27%  Similarity=0.385  Sum_probs=45.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -+-|+|+.+||||-||-++....  |.-   ..++|-||-.-+.-+.   ..|+.+.+-+.||-|..
T Consensus        11 Kfl~iG~aGtGKSCLLh~Fie~k--fkD---dssHTiGveFgSrIin---VGgK~vKLQIWDTAGQE   69 (214)
T KOG0086|consen   11 KFLVIGSAGTGKSCLLHQFIENK--FKD---DSSHTIGVEFGSRIVN---VGGKTVKLQIWDTAGQE   69 (214)
T ss_pred             eeEEeccCCCChhHHHHHHHHhh--hcc---cccceeeeeecceeee---ecCcEEEEEEeecccHH
Confidence            35689999999999999998765  543   2368999988876553   35677889999999953

>TIGR02977 phageshock_pspA phage shock protein A

Probab=92.68  E-value=14  Score=38.13  Aligned_cols=15  Identities=13%  Similarity=-0.055  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHH
Q 005055          593 EISDWKRKYDQVLTK  607 (716)
Q Consensus       593 e~~e~~r~y~~~i~~  607 (716)
                      +..+-+..|++.+..
T Consensus        89 ~Al~~k~~~~~~~~~  103 (219)
T TIGR02977        89 AALIEKQKAQELAEA  103 (219)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333334444444443

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=92.68  E-value=0.077  Score=53.74  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|.|-.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            89999999999999999999863

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=92.67  E-value=0.084  Score=53.80  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        32 ~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        32 EIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999874

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=92.65  E-value=0.085  Score=53.66  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            79999999999999999999874

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=92.65  E-value=0.086  Score=53.46  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||||++.|+|..
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=92.63  E-value=0.087  Score=53.38  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999999864

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=92.62  E-value=0.09  Score=50.28  Aligned_cols=24  Identities=29%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++|||+|++.|.|..
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCC
Confidence            378999999999999999999874

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=92.62  E-value=0.085  Score=54.58  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCc
Confidence            379999999999999999999864

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR03263 guanyl_kin guanylate kinase

Probab=92.61  E-value=0.11  Score=51.00  Aligned_cols=26  Identities=23%  Similarity=0.479  Sum_probs=22.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGF   98 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF   98 (716)
                      +|.|+||.++|||+|++.|.+...++
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~~~~   28 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEEDPNL   28 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCccc
Confidence            68999999999999999999865433

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=92.60  E-value=0.17  Score=55.47  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++++||.++||||||+.|+|--
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999999863

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=92.59  E-value=0.084  Score=54.11  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=22.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          27 EITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            379999999999999999999875

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=92.58  E-value=0.085  Score=55.33  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=22.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|..
T Consensus        31 e~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         31 SVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            479999999999999999999964

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=92.58  E-value=0.087  Score=53.44  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            78999999999999999999864

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=92.56  E-value=5.4  Score=44.70  Aligned_cols=20  Identities=10%  Similarity=0.094  Sum_probs=11.7

Q ss_pred             CCccccccCCCcccceEEee
Q 005055           95 SSGFQVASTHRPCTKGLWLW  114 (716)
Q Consensus        95 ~~gF~~g~~~~~~TkGIWmw  114 (716)
                      ..+|.-|+...-.|+||--.
T Consensus        40 ~~~~~sgnp~ve~t~GiiHL   59 (493)
T KOG0804|consen   40 QIKYSSGNPSVEETHGIIHL   59 (493)
T ss_pred             cccccCCCCceeeeceeEEE
Confidence            34555555555667887544

>PF14992 TMCO5: TMCO5 family

Probab=92.56  E-value=2.6  Score=44.74  Aligned_cols=92  Identities=14%  Similarity=0.173  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
Q 005055          593 EISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSA----------QEEVEEWKRKYGVAVREAK  662 (716)
Q Consensus       593 e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~a----------k~E~~~w~~kY~~~~~~~K  662 (716)
                      .+.|+.++..+.-.+..-....+...++..+++++.+.+-|+..+.++...          ..+...|-+||+..+  .|
T Consensus        85 ~~~elq~k~~e~~~~~~~e~~~~~~~lq~sk~~lqql~~~~~~qE~ei~kve~d~~~v~~l~eDq~~~i~klkE~L--~r  162 (280)
T PF14992_consen   85 SVQELQRKQDEQETNVQCEDPQLSQSLQFSKNKLQQLLESCASQEKEIAKVEDDYQQVHQLCEDQANEIKKLKEKL--RR  162 (280)
T ss_pred             hhhhhhhhhccccCCCCCCccchhcccHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HH
Confidence            335555554444333323344455556666666555555555555554444          567788999999999  45


Q ss_pred             HHHHHHHHHHHHhhHHHHhhHHHH
Q 005055          663 AALEKAAIVQERTSKEMQQREDVL  686 (716)
Q Consensus       663 a~leq~~~~~~~~~e~~q~~e~~~  686 (716)
                      ..-++++...++-+..+|....+.
T Consensus       163 mE~ekE~~lLe~el~k~q~~~s~~  186 (280)
T PF14992_consen  163 MEEEKEMLLLEKELSKYQMQDSQS  186 (280)
T ss_pred             HHHHHHHHHHHHHHHHHhchhhch
Confidence            555999999999999998875544

>PLN00223 ADP-ribosylation factor; Provisional

Probab=92.54  E-value=0.19  Score=49.73  Aligned_cols=53  Identities=19%  Similarity=0.180  Sum_probs=36.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      =|.|+|..++|||+|++++....  |.  . . ..|.|+-+..  +     +...+.+.+.||.|.
T Consensus        19 ki~ivG~~~~GKTsl~~~l~~~~--~~--~-~-~pt~g~~~~~--~-----~~~~~~~~i~D~~Gq   71 (181)
T PLN00223         19 RILMVGLDAAGKTTILYKLKLGE--IV--T-T-IPTIGFNVET--V-----EYKNISFTVWDVGGQ   71 (181)
T ss_pred             EEEEECCCCCCHHHHHHHHccCC--Cc--c-c-cCCcceeEEE--E-----EECCEEEEEEECCCC
Confidence            47899999999999999997543  42  1 1 2355654332  1     123478999999995

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=92.54  E-value=0.049  Score=52.91  Aligned_cols=25  Identities=28%  Similarity=0.650  Sum_probs=18.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      |+|+|..+||||||++.|...  |+.+
T Consensus         2 I~i~G~~stGKTTL~~~L~~~--g~~~   26 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR--GYPV   26 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH--T-EE
T ss_pred             EEEECCCCCCHHHHHHHHHHc--CCeE
Confidence            789999999999999999966  5543

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=92.54  E-value=8.5  Score=43.67  Aligned_cols=125  Identities=14%  Similarity=0.097  Sum_probs=70.3

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHh------------HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhH
Q 005055          520 YRSIEDNMKLLKKQLEDSERYKSEYLKR------------YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTV  587 (716)
Q Consensus       520 ~~s~e~e~~~l~k~~e~~~~~~~~~~k~------------lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~l  587 (716)
                      ..-++.+++.-++.+.+....+..++.+            .-+.|+.|+.+.-+...+++.|..-.+.-.-++..+..++
T Consensus       244 v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~~L~~~~~p~sPqV~~l~~rI  323 (434)
T PRK15178        244 ILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYAQLMVNGLDQNPLIPRLSAKI  323 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHH
Confidence            4445555555555555555444544432            2244444444444444554444443333334455555566


Q ss_pred             HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          588 DSLKNEISDWKRKYDQ-----VLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWK  651 (716)
Q Consensus       588 e~~k~e~~e~~r~y~~-----~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~  651 (716)
                      .++++++.+-+.+.-.     .+++       ..++-+.|.-...-++..+.++-..++.|+-|+..+.
T Consensus       324 ~aLe~QIa~er~kl~~~~g~~~la~-------~laeYe~L~le~efAe~~y~sAlaaLE~AR~EA~RQ~  385 (434)
T PRK15178        324 KVLEKQIGEQRNRLSNKLGSQGSSE-------SLSLFEDLRLQSEIAKARWESALQTLQQGKLQALRER  385 (434)
T ss_pred             HHHHHHHHHHHHHhhcCCCCCchhH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            6666666665555421     1222       2333455555666889999999999999999998543

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.54  E-value=0.1  Score=53.72  Aligned_cols=35  Identities=23%  Similarity=0.331  Sum_probs=28.3

Q ss_pred             HHHhhccCCCEE---EEEeeCCCCCChhHHHHHhhCCC
Q 005055           61 VAALQLVKEPIG---VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        61 l~~L~~i~~pV~---VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .++|..++--|.   |-+|.||.+||||||.+.|.|..
T Consensus        17 keILkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p   54 (251)
T COG0396          17 KEILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHP   54 (251)
T ss_pred             hhhhcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            367776654333   78999999999999999999985

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=92.53  E-value=0.095  Score=51.15  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++|||+||+.|+|..
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999999864

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=92.52  E-value=0.084  Score=52.98  Aligned_cols=21  Identities=19%  Similarity=0.493  Sum_probs=19.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ||+|+|+.+||||||.+.|..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999864

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd01875 RhoG RhoG subfamily

Probab=92.52  E-value=0.23  Score=49.47  Aligned_cols=57  Identities=28%  Similarity=0.232  Sum_probs=38.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++....  |.-  .. ..|.|.-. ..++   ..+|..+.+-+.||.|..
T Consensus         6 i~~vG~~~vGKTsli~~~~~~~--f~~--~~-~~t~~~~~-~~~~---~~~~~~~~l~i~Dt~G~e   62 (191)
T cd01875           6 CVVVGDGAVGKTCLLICYTTNA--FPK--EY-IPTVFDNY-SAQT---AVDGRTVSLNLWDTAGQE   62 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCc--CC-CCceEeee-EEEE---EECCEEEEEEEEECCCch
Confidence            7899999999999999998754  632  11 23445422 2222   124667899999999964

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

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=92.49  E-value=20  Score=39.61  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=12.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH
Q 005055          626 STAAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       626 ~~~~eerl~~~~~ql~~ak~E~~  648 (716)
                      ....+++++....++++..+++.
T Consensus       212 ~q~r~~ela~r~aa~Qq~~q~i~  234 (499)
T COG4372         212 AQARTEELARRAAAAQQTAQAIQ  234 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555554

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=92.47  E-value=0.092  Score=53.66  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=92.46  E-value=0.094  Score=53.08  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999864

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=92.46  E-value=0.065  Score=55.19  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=20.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+|+|+.++|||||++.|.+.-
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=92.45  E-value=8.9  Score=45.32  Aligned_cols=182  Identities=14%  Similarity=0.178  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHH----------hHHHHHHHHHHHHHHHHHHHHH
Q 005055          499 LDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLK----------RYDDAINDKKKLADDYTSRINN  568 (716)
Q Consensus       499 l~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k----------~lee~i~dlk~~~e~~~~~~~~  568 (716)
                      +..+.+.....+.++..++..+..+++.-+..+..+...++..-..++          .++.++.......-+...++.+
T Consensus        37 ~~~ar~~~~~a~e~~~~lq~~~~e~~aqk~d~E~ritt~e~rflnaqre~t~~~d~ndklE~~Lankda~lrq~eekn~s  116 (916)
T KOG0249|consen   37 LPEARKDLIKAEEMNTKLQRDIREAMAQKEDMEERITTLEKRFLNAQRESTSIHDLNDKLENELANKDADLRQNEEKNRS  116 (916)
T ss_pred             hhhhHHHHHHHHHHHHHHhhhhhhHHhhhcccccccchHHHHHHhccCCCCCcccchHHHHHHHhCcchhhchhHHhhhh


Q ss_pred             HHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHhh----------
Q 005055          569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV-------------LTKQKAMEDQVCSEIEVLKSR----------  625 (716)
Q Consensus       569 l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~-------------i~~~k~~~~~~~~~i~~l~~r----------  625 (716)
                      |+......|++...... .+++..--+++.++..++             +......-+++..++..+..|          
T Consensus       117 lqerLelaE~~l~qs~r-ae~lpeveael~qr~~al~~aee~~~~~eer~~kl~~~~qe~naeL~rarqreemneeh~~r  195 (916)
T KOG0249|consen  117 LQERLELAEPKLQQSLR-AETLPEVEAELAQRNAALTKAEEHSGNIEERTRKLEEQLEELNAELQRARQREKMNEEHNKR  195 (916)
T ss_pred             hhHHHHHhhHhhHhHHh-hhhhhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc


Q ss_pred             -hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHH
Q 005055          626 -STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE  696 (716)
Q Consensus       626 -~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~  696 (716)
                       +.+.+|++.-...+..+|.++.+               .|+++.....+.+++++.-+|.|+++......+
T Consensus       196 lsdtvdErlqlhlkermaAle~kn---------------~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e  252 (916)
T KOG0249|consen  196 LSDTVDERLQLHLKERMAALEDKN---------------RLEQELESVKKQLEEMRHDKDKLRTDIEDLRGE  252 (916)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=92.45  E-value=0.093  Score=53.79  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            69999999999999999999874

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=92.44  E-value=0.094  Score=53.98  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999874

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=92.44  E-value=0.1  Score=53.00  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=23.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+ -+++|+|+.++||||||+.|+|..
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            46 899999999999999999999864

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=92.42  E-value=0.096  Score=52.71  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||||++.|+|..
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=92.40  E-value=0.41  Score=53.13  Aligned_cols=111  Identities=18%  Similarity=0.161  Sum_probs=61.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC--Cccccc-------c-CC-CcccceEEeeccccccccCCCCceeEEE-EeC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS--SGFQVA-------S-TH-RPCTKGLWLWSAPLKRTALDGTEYNLLL-LDS  135 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~--~gF~~g-------~-~~-~~~TkGIWmw~~p~~~~~~~g~~~~vvl-LDT  135 (716)
                      ..+++||.|+|+..||||||.+.|+++.  .||.++       . .+ -|.|.+.-.=..|+.. ......++..| =++
T Consensus        70 ~~~~~~vmvvG~vDSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~~~-L~~l~~~~~~FvG~i  148 (398)
T COG1341          70 AGKVGVVMVVGPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEIGPPGFISLAFPESPVIS-LSELEPFTLYFVGSI  148 (398)
T ss_pred             ccCCcEEEEECCcCcCHHHHHHHHHHHHhhcCceEEEEeCCCCCcccCCCceEEeecccCCCCC-HHHcCccceEEEecc
Confidence            4688999999999999999999988753  366443       1 11 1222222222222110 00111122233 222


Q ss_pred             CCCcccccCCcchhHHHHHhhhccceEEEccCCCCch-HhhhhhH
Q 005055          136 EGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDE-SAIDRLS  179 (716)
Q Consensus       136 EGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e-~~l~~L~  179 (716)
                      .-.+...+--.-=++++.+|.=.+-..|.|+.|-|.- .+++.+.
T Consensus       149 sP~~~~~~~i~~v~rL~~~a~~~~~~ilIdT~GWi~G~~g~elk~  193 (398)
T COG1341         149 SPQGFPGRYIAGVARLVDLAKKEADFILIDTDGWIKGWGGLELKR  193 (398)
T ss_pred             CCCCChHHHHHHHHHHHHHhhccCCEEEEcCCCceeCchHHHHHH
Confidence            2111111111113678888877778889999999987 7887653

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=92.40  E-value=0.093  Score=52.21  Aligned_cols=21  Identities=38%  Similarity=0.438  Sum_probs=19.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|+|+|+.++|||||||.+++
T Consensus        23 ~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            789999999999999999875

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=92.39  E-value=0.095  Score=54.10  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            79999999999999999999864

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=92.39  E-value=13  Score=37.10  Aligned_cols=92  Identities=17%  Similarity=0.271  Sum_probs=57.8

Q ss_pred             HHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHH
Q 005055          515 SLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEI  594 (716)
Q Consensus       515 ~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~  594 (716)
                      .|+.|++.+|-+-..-+.++..+......+.+.++.....-...-.+...++..|..+..+.+.||+.|.+||+-.++=.
T Consensus         8 ~LQeKIrrLELER~qAe~nl~~LS~et~~yk~vl~~~~~~~~~~~~e~~~q~~dl~~qL~aAEtRCslLEKQLeyMRkmv   87 (178)
T PF14073_consen    8 NLQEKIRRLELERSQAEDNLKQLSRETSHYKKVLQSEQNERERAHQELSKQNQDLSSQLSAAETRCSLLEKQLEYMRKMV   87 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHHHHHHHhhhhhcccchhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444554444444444555555555556666665555544444556666788999999999999999999998777655


Q ss_pred             HHHHHHHHHHHH
Q 005055          595 SDWKRKYDQVLT  606 (716)
Q Consensus       595 ~e~~r~y~~~i~  606 (716)
                      .--...=...+.
T Consensus        88 ~~ae~er~~~le   99 (178)
T PF14073_consen   88 ESAEKERNAVLE   99 (178)
T ss_pred             HHHHHhhhHHHH
Confidence            444443333343

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=92.38  E-value=0.097  Score=53.07  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||||++.|+|..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999863

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=92.38  E-value=7.8  Score=38.71  Aligned_cols=111  Identities=15%  Similarity=0.276  Sum_probs=0.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEV  621 (716)
Q Consensus       542 ~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~  621 (716)
                      +.-....+..+.++.++.++...++..+......+++......+.+.+.+.+...++..|.....+.....    +.+.+
T Consensus        80 ~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~----~~~~~  155 (191)
T PF04156_consen   80 QGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ----KELQD  155 (191)
T ss_pred             hhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHH


Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          622 LKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEK  667 (716)
Q Consensus       622 l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq  667 (716)
                      .+.++......+..+....+...+-..           +.++.++|
T Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------~~~~l~~~  190 (191)
T PF04156_consen  156 SREEVQELRSQLERLQENLQQLEEKIQ-----------ELQELLEQ  190 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHhh

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=92.37  E-value=0.096  Score=54.27  Aligned_cols=24  Identities=25%  Similarity=0.214  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         29 ETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999999874

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=92.37  E-value=0.096  Score=53.99  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=92.37  E-value=0.16  Score=56.69  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        42 ~~~LlGpsGsGKSTLLr~IaGl~   64 (375)
T PRK09452         42 FLTLLGPSGCGKTTVLRLIAGFE   64 (375)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            79999999999999999999864

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=92.33  E-value=0.099  Score=53.35  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999874

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=92.32  E-value=0.13  Score=52.97  Aligned_cols=28  Identities=21%  Similarity=0.229  Sum_probs=24.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+..||+|+|+.++|||||++.|.+..
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4567899999999999999999998764

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=92.30  E-value=0.099  Score=52.82  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||+||+.|+|..
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          36 KIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            79999999999999999999864

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=92.30  E-value=0.098  Score=54.93  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         28 ELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999999864

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=92.30  E-value=0.1  Score=52.37  Aligned_cols=26  Identities=27%  Similarity=0.282  Sum_probs=22.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |=-+++|+|+.++|||+|++.|.|..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33479999999999999999999864

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=92.28  E-value=0.098  Score=53.87  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          27 EIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCC
Confidence            379999999999999999999864

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=92.28  E-value=0.1  Score=53.64  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++|+|+.++||||||+.|+|..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          27 EIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999999864

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=92.27  E-value=0.12  Score=42.52  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=18.0

Q ss_pred             EEEeeCCCCCChhHHHHHhh
Q 005055           73 VVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +..|.|+.++|||+||+.+.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999853

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=92.27  E-value=0.14  Score=55.45  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=22.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+++++|+.++|||||++.|+|..
T Consensus        34 ei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         34 ECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999999874

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=92.25  E-value=0.1  Score=53.78  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        14 ~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770        14 VLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=92.21  E-value=0.1  Score=53.47  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=22.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|..
T Consensus        37 e~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         37 ETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            379999999999999999999864

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=92.20  E-value=0.1  Score=53.89  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|+|.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        28 IHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999999986

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins

Probab=92.18  E-value=17  Score=38.21  Aligned_cols=85  Identities=14%  Similarity=0.241  Sum_probs=42.7

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          584 SKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEAR-LAAAREQALSAQEEVEEWKRKYGVAVREAK  662 (716)
Q Consensus       584 ~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eer-l~~~~~ql~~ak~E~~~w~~kY~~~~~~~K  662 (716)
                      .++++.++.-...-+..|+..++........+...+...=.+++.+|+. +.-           +.++--.|...++..=
T Consensus       149 ~k~~eK~~~K~~ka~~~Y~~~v~~~~~~~~~~~~~m~~~~~~~Q~lEe~Ri~~-----------~k~~l~~y~~~~~~~~  217 (261)
T cd07648         149 PKEIEKAEAKLKKAQDEYKALVEKYNNIRADFETKMTDSCKRFQEIEESHLRQ-----------MKEFLASYAEVLSENH  217 (261)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHhcc
Confidence            4555555555555556666666666555555655555444444444432 211           3334445666664443


Q ss_pred             HHHHHHHHHHHHhhHHH
Q 005055          663 AALEKAAIVQERTSKEM  679 (716)
Q Consensus       663 a~leq~~~~~~~~~e~~  679 (716)
                      -..++.....+..++..
T Consensus       218 ~~~~~~~e~~~~~~~~i  234 (261)
T cd07648         218 SAVGQVHEEFKRQVDEL  234 (261)
T ss_pred             chHHHHHHHHHHHHHhC
Confidence            34444444444444433

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proteins in this group have been named FCH domain Only (FCHO) proteins. Vertebrates have two members, FCHO1 and FCHO2. These proteins contain an F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.18  E-value=0.11  Score=52.17  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=21.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||+|++.|+|..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            89999999999999999999975

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=92.17  E-value=8.3  Score=38.51  Aligned_cols=111  Identities=18%  Similarity=0.283  Sum_probs=0.0

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSA  643 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~a  643 (716)
                      ..++.+..+.+.+...+.++++.......+....+...   .............++..++..+..+.+.+..+...+...
T Consensus        77 ~~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~  156 (191)
T PF04156_consen   77 PRLQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDS  156 (191)
T ss_pred             hhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005055          644 QEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKE  678 (716)
Q Consensus       644 k~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~  678 (716)
                      +.++.+.+..+..+. ..+..+++.+...+.++++
T Consensus       157 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~l~~~  190 (191)
T PF04156_consen  157 REEVQELRSQLERLQ-ENLQQLEEKIQELQELLEQ  190 (191)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhh

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	716
1dg3_A	592	Structure Of Human Guanylate Binding Protein-1 In N		3e-52
2b8w_A	328	Crystal-Structure Of The N-Terminal Large Gtpase Do		1e-47
4idn_A	457	Human Atlastin-1 1-446, C-his6, Gppnhp Length = 457		5e-11
3qnu_A	459	Crystal Structure Of The Cytosolic Domain Of Human		5e-11
3q5e_A	447	Crystal Structure Of Human Atlastin-1 (Residues 1-4		5e-11
4idq_A	447	Human Atlastin-1 1-446, N440t, Gdpalf4- Length = 44		5e-11
3q5d_A	447	Crystal Structure Of Human Atlastin-1 (Residues 1-4		1e-09
4idp_A	447	Human Atlastin-1 1-446, N440t, Gppnhp Length = 447		1e-09

>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In Nucleotide Free Form Length = 592

Iteration: 1
 Score =  203 bits (516), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 171/599 (28%), Positives = 295/599 (49%), Gaps = 57/599 (9%)
Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I     +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ 
Sbjct: 7   MTGPMCLIE----NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 62
Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +       + L+LLD+EG+ D         + IF+L
Sbjct: 63  KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 118
Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT-----PSELGQFSPIF 209
           AVLLSS F+YN +G I++ A+D+L  VT++T  IR ++S  +        ++   F P F
Sbjct: 119 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 178
Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
           VW LRDF LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF  
Sbjct: 179 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 238
Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
            RP+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  + 
Sbjct: 239 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 297
Query: 329 ESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAH 385
            +Y++AI++G +P + ++  ++ + E   A   A   Y     +    P E +  L + H
Sbjct: 298 LTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLH 357
Query: 386 EAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSA 440
             + ++A+ V+      +  + K  + L QK      E       K+N    +D RCS  
Sbjct: 358 RDSEREAIEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSGL 410
Query: 441 IQ----SMERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQS 493
           +Q     +E +++A  +S        V+ L  L  + YE    G    + L T+L  ++S
Sbjct: 411 LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKES 470
Query: 494 SEGPILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLL-------KKQLEDSERYKSE 543
               IL   + L +   +I  ER    +K  S + + K+L       ++ +E  ER   E
Sbjct: 471 MTDAILQTDQTLTEKEKEIEVER----VKAESAQASAKMLHEMQRKNEQMMEQKERSYQE 526
Query: 544 YLKRYDDAI-NDKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
           +LK+  + + ND+ +L  +    +   LQ +   L+E      K    +KNEI D + K
Sbjct: 527 HLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE---GFQKESRIMKNEIQDLQTK 582

>pdb|2B8W|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of Human Guanylate Binding Protein 1 (Hgbp1) In Complex With GmpALF4 Length = 328

Iteration: 1
 Score =  188 bits (477), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 106/318 (33%), Positives = 180/318 (56%), Gaps = 16/318 (5%)
Query: 36  VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
           +TGP   I     +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+ 
Sbjct: 18  MTGPMCLIE----NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 73
Query: 96  SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
            GF + ST +  TKG+W+W  P  +       + L+LLD+EG+ D         + IF+L
Sbjct: 74  KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 129
Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKT-----TPSELGQFSPIF 209
           AVLLSS F+YN +G I++ A+D+L  VT++T  IR ++S  +        ++   F P F
Sbjct: 130 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 189
Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
           VW LRDF LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF  
Sbjct: 190 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 249
Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
            RP+ +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  + 
Sbjct: 250 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 308
Query: 329 ESYLDAINNGAVPTISSS 346
            +Y++AI++G +P + ++
Sbjct: 309 LTYVNAISSGDLPCMENA 326

>pdb|4IDN|A Chain A, Human Atlastin-1 1-446, C-his6, Gppnhp Length = 457

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 86/372 (23%), Positives = 150/372 (40%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+++ +L   
Sbjct: 32  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 91
Query: 93  -GRSSGFQVASTHRPCTKGLW------------LWSAPLKRTALDGTEYNLLLLDSEGID 139
             + S   V   + P T   W            +WS        DG +  +LL+D++G  
Sbjct: 92  YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+ ++SS+ +YN    + E  +  L L T+           G+   
Sbjct: 152 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 368 -NKKMEEICGGD 378

>pdb|3QNU|A Chain A, Crystal Structure Of The Cytosolic Domain Of Human Atlastin-1 In Complex With Gdp, Hexagonal Form Length = 459

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+++ +L   
Sbjct: 44  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 103
Query: 93  -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
             + S   V   + P T             G+ +WS        DG +  +LL+D++G  
Sbjct: 104 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 163
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+ ++SS+ +YN    + E  +  L L T+           G+   
Sbjct: 164 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 213
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 214 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 269
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 270 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 324
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 325 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 379
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 380 -NKKMEEICGGD 390

>pdb|3Q5E|A Chain A, Crystal Structure Of Human Atlastin-1 (Residues 1-447) Bound To Gdp, Crystal Form 2 Length = 447

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+++ +L   
Sbjct: 32  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 91
Query: 93  -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
             + S   V   + P T             G+ +WS        DG +  +LL+D++G  
Sbjct: 92  YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+ ++SS+ +YN    + E  +  L L T+           G+   
Sbjct: 152 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 368 -NKKMEEICGGD 378

>pdb|4IDQ|A Chain A, Human Atlastin-1 1-446, N440t, Gdpalf4- Length = 447

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+++ +L   
Sbjct: 33  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 92
Query: 93  -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
             + S   V   + P T             G+ +WS        DG +  +LL+D++G  
Sbjct: 93  YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 152
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+ ++SS+ +YN    + E  +  L L T+           G+   
Sbjct: 153 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 202
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 203 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 258
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 259 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 313
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 314 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 368
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 369 -NKKMEEICGGD 379

>pdb|3Q5D|A Chain A, Crystal Structure Of Human Atlastin-1 (Residues 1-447) Bound To Gdp, Crystal Form 1 Length = 447

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 85/372 (22%), Positives = 145/372 (38%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLLGRS 95
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+ +  L   
Sbjct: 32  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLXDFXLRYX 91
Query: 96  ----------------SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
                           +GF         T G+ +WS        DG +  +LL D++G  
Sbjct: 92  YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLXDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+  +SS+ +YN    + E  +  L L T+           G+   
Sbjct: 152 DSQSTLRDSATVFALSTXISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAX 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSXLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 368 -NKKXEEICGGD 378

>pdb|4IDP|A Chain A, Human Atlastin-1 1-446, N440t, Gppnhp Length = 447

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 85/372 (22%), Positives = 145/372 (38%), Gaps = 53/372 (14%)
Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLLGRS 95
           A P++++   +   F +D  A+  + L +    + +  VSV G  R+GKSF+ +  L   
Sbjct: 33  AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLXDFXLRYX 92
Query: 96  ----------------SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
                           +GF         T G+ +WS        DG +  +LL D++G  
Sbjct: 93  YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLXDTQGTF 152
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
               T   S  +F+L+  +SS+ +YN    + E  +  L L T+           G+   
Sbjct: 153 DSQSTLRDSATVFALSTXISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAX 202
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
            E  L  F  + ++L+RD+               +LE  L+    SG        +R  I
Sbjct: 203 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 258
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
            + F +  CF L  P     +N N   +L +I       EF   L  L  ++   E    
Sbjct: 259 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 313
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
           K++    +T   L+   ++Y+       +P   S  Q+  EA    A  +A +TY     
Sbjct: 314 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSXLQATAEANNLAAVATAKDTY----- 368
Query: 372 RSKPPEEVALGE 383
            +K  EE+  G+
Sbjct: 369 -NKKXEEICGGD 379

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	716
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	1e-115
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	2e-89
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-20
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-07
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	8e-06
4akv_A	386	Sorting nexin-33; transport protein, organelle bio	3e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	7e-04

>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* Length = 592

 Score =  359 bits (922), Expect = e-115
 Identities = 154/588 (26%), Positives = 279/588 (47%), Gaps = 34/588 (5%)

Query: 40  ARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQ 99
             P+ L+  +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+  GF 
Sbjct: 8   TGPMCLIE-NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFS 66

Query: 100 VASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSLAVLL 158
           + ST +  TKG+W+W  P          + L+LLD+EG+ D         + IF+LAVLL
Sbjct: 67  LGSTVQSHTKGIWMWCVPHP----KKPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLL 122

Query: 159 SSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT-----PSELGQFSPIFVWLL 213
           SS F+YN +G I++ A+D+L  VT++T  IR ++S  +        ++   F P FVW L
Sbjct: 123 SSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDFVWTL 182

Query: 214 RDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPL 273
           RDF LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF   RP 
Sbjct: 183 RDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRP- 241

Query: 274 SNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYL 332
            +  +L +L+++  + L PEF   +     ++F  ++ K + G   + GP L  +  +Y+
Sbjct: 242 VHRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYV 301

Query: 333 DAINNGAVPTISSSWQSVEEAECRRAYDSATETY---MSTFDRSKPPEEVALGEAHEAAV 389
           +AI++G +P + ++  ++ + E   A   A   Y   M    +        L + H  + 
Sbjct: 302 NAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLHRDSE 361

Query: 390 QKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQ----SME 445
           ++A+ V+             ++  L     K  +D  K     +  RCS  +Q     +E
Sbjct: 362 REAIEVFI--RSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSDRCSGLLQVIFSPLE 419

Query: 446 RKLRAACHSSDASIDNVVKVLDGLISEY-ETSCHGPGKWQKLATFLQ--QSSEGPILDLV 502
            +++A  +S        V+ L  L  +Y E    G    + L T+L+  +S    IL   
Sbjct: 420 EEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTD 479

Query: 503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAIND-KKKLADD 561
           + L ++   E     +K  S + + K+L +    +E+   +  + Y + +    +K+ +D
Sbjct: 480 QTLTEKE-KEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMEND 538

Query: 562 YTSRINNLQGENISLREKS------SSLSKTVDSLKNEISDWKRKYDQ 603
               +   +   ++L+ +           K    +KNEI D + K  +
Sbjct: 539 RVQLLKEQE-RTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTKMRR 585

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A* Length = 447

 Score =  286 bits (731), Expect = 2e-89
 Identities = 83/446 (18%), Positives = 162/446 (36%), Gaps = 45/446 (10%)

Query: 10  KDSSPYNSLQPSTSPSSSRLPLNSTPVTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKE 69
           +D + +      T   SS            A P++++   +   F +D  A+  + L + 
Sbjct: 6   RDRNSWGGFSEKTYEWSS----EEEEPVKKAGPVQVLIVKDDHSFELDETALNRILLSEA 61

Query: 70  ----PIGVVSVCGRARQGKSFILNQLLGRS----------------SGFQVASTHRPCTK 109
                +  VSV G  R+GKSF+++ +L                   +GF         T 
Sbjct: 62  VRDKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETT 121

Query: 110 GLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGG 169
           G+ +WS        DG +  +LL+D++G      T   S  +F+L+ ++SS+ +YN    
Sbjct: 122 GIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQN 181

Query: 170 IDESAIDRLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITP 229
           + E  +  L L T+  +                 +     ++L+RD+             
Sbjct: 182 VQEDDLQHLQLFTEYGRLAM---------EETFLKPFQSLIFLVRDWSFPYEFSYGADGG 232

Query: 230 RDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNENELQRLDQISLDR 289
             +LE  L+       ++     +R  I + F +  CF L  P          D   L  
Sbjct: 233 AKFLEKRLKVSGNQHEEL---QNVRKHIHSCFTNISCFLLPHPGLKVATNPNFDG-KLKE 288

Query: 290 LRPEFRAGLDALTKFVF--ERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSW 347
           +  EF   L  L  ++   E    K++    +T   L+   ++Y+       +P   S  
Sbjct: 289 IDDEFIKNLKILIPWLLSPESLDIKEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSML 348

Query: 348 QSVEEAECRRAYDSATETYMSTFDRSKPPEEV-----ALGEAHEAAVQKALAVYNAGA-V 401
           Q+  EA    A  +A +TY    +     ++       L   H    ++++ ++     +
Sbjct: 349 QATAEANNLAAVATAKDTYNKKMEEICGGDKPFLAPNDLQTKHLQLKEESVKLFRGVKKM 408

Query: 402 GVGLARKKYEGLLQKFFRKAFEDHKK 427
           G     ++Y   L+    + +  + K
Sbjct: 409 GGEEFSRRYLQQLESEIDELYIQYIK 434

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 94.1 bits (233), Expect = 7e-20
 Identities = 104/628 (16%), Positives = 182/628 (28%), Gaps = 218/628 (34%)

Query: 4   KFFGKGKDSSPYNSL---------QPS---TSPSSSRLPLNSTPVTGPARPIRLVYCDEK 51
           KF  +    + Y  L         QPS         R  L +         +        
Sbjct: 81  KFVEEVLRIN-YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS------- 132

Query: 52  GKFRMDPEAVAALQ--LVK-EPIGVVSVCGRARQGKSFILNQLLGRSSGFQ--------- 99
              R   +    L+  L++  P   V + G    GK+++   +   S   Q         
Sbjct: 133 ---R--LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC-LSYKVQCKMDFKIFW 186

Query: 100 --VASTHRP--CTKGLW-LW---------------SAPL--------KRTALDGTEYN-- 129
             + + + P    + L  L                +  L         R  L    Y   
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 130 LLLLD----SEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMT 185
           LL+L     ++  +A++          S  +LL++           +   D LS  T  T
Sbjct: 247 LLVLLNVQNAKAWNAFN---------LSCKILLTTR---------FKQVTDFLSAAT--T 286

Query: 186 KHIRIRASGGKTTPSE-LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSG 244
            HI +       TP E          +L      DL  +     P     +++       
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLK---YLDCRPQ-DLPREVLTTNP---RRLSI------- 332

Query: 245 RDIAAKNEIRDSIRALFPDR-ECFTLVRPLSNENELQRLDQISLDRLRP-EFRAGLDALT 302
             IA    IRD          + +  V    N ++L  + + SL+ L P E+R   D L 
Sbjct: 333 --IAE--SIRD-----GLATWDNWKHV----NCDKLTTIIESSLNVLEPAEYRKMFDRL- 378

Query: 303 KFVFERTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAEC------- 355
             VF    P               I               +S  W  V +++        
Sbjct: 379 -SVF----PPSA-----------HIPTI-----------LLSLIWFDVIKSDVMVVVNKL 411

Query: 356 -------RRAYDSATETYMSTFD-RSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLAR 407
                  ++  +S         + + K   E AL   H + V      YN          
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYAL---HRSIVDH----YN--------IP 456

Query: 408 KKYEGLLQKFFRKAFED---------HKKNVYMEADIRCSSAI----QSMERKLRAACHS 454
           K ++          + D         H KN+     +     +    + +E+K+R    +
Sbjct: 457 KTFD---SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA 513

Query: 455 SDA--SIDNVVKVLD---GLISEYETSCHGPGKWQKLATFLQQSSE----GPILDLVKRL 505
            +A  SI N ++ L      I + +           +  FL +  E        DL+   
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDPKYE--RLVNAILDFLPKIEENLICSKYTDLL--- 568

Query: 506 IDQIGSERSSLMLKYRSI-EDNMKLLKK 532
             +I      LM +  +I E+  K +++
Sbjct: 569 --RIA-----LMAEDEAIFEEAHKQVQR 589

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 71.0 bits (173), Expect = 9e-13
 Identities = 79/524 (15%), Positives = 159/524 (30%), Gaps = 138/524 (26%)

Query: 205 FSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRD-SIRALFPD 263
           F+   V  L+  YL L +   ++ P     + +  V GSG+   A +      ++     
Sbjct: 126 FAKYNVSRLQP-YLKLRQALLELRPAKN--VLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182

Query: 264 -------RECFT---LVRPLSN------ENELQRLDQISLDRLRPEFRAGLDALTKFVFE 307
                  + C +   ++  L         N   R D  S  +LR    +    L + +  
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--SIQAELRRLLKS 240

Query: 308 RTRPKQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYM 367
           +          L    L+      L  + N         W +     C+          +
Sbjct: 241 KPYEN-----CL----LV------LLNVQNAKA------WNAFN-LSCK--------ILL 270

Query: 368 STFDRSKPPEEVALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKK 427
           +T  +      V   +   AA    +++ +     + L   + + LL K+     +D  +
Sbjct: 271 TTRFKQ-----VT--DFLSAATTTHISLDH---HSMTLTPDEVKSLLLKYLDCRPQDLPR 320

Query: 428 NVYMEADIRCS------SAIQSMERK--------LRAACHSSDASIDNVVKVLD-GLISE 472
               E     +      S I    R             C      I++ + VL+     +
Sbjct: 321 ----EV---LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

Query: 473 YETSC-------HGPGK-----WQKLATFLQQSSEGPILD-LVKR-LIDQIGSERS---- 514
                       H P       W  +           +++ L K  L+++   E +    
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV----VVNKLHKYSLVEKQPKESTISIP 429

Query: 515 SLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKL-ADDYT-SRI-----N 567
           S+ L+ +   +N   L + +   + Y     K +D   +D      D Y  S I     N
Sbjct: 430 SIYLELKVKLENEYALHRSI--VDHYN--IPKTFDS--DDLIPPYLDQYFYSHIGHHLKN 483

Query: 568 NLQGENIS-----------LREK---SSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMED 613
               E ++           L +K    S+      S+ N +    + Y   +       +
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL-KFYKPYICDNDPKYE 542

Query: 614 QVCSEIE--VLKSRSTAAEARLAAAREQALSAQEE--VEEWKRK 653
           ++ + I   + K       ++       AL A++E   EE  ++
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 70.7 bits (172), Expect = 1e-12
 Identities = 75/517 (14%), Positives = 154/517 (29%), Gaps = 158/517 (30%)

Query: 217 YLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNE 276
           ++D      +   +D L +          +   K +++D  +++    E   ++      
Sbjct: 6   HMDFETGEHQYQYKDILSVFEDAFV---DNFDCK-DVQDMPKSILSKEEIDHIIMSKDAV 61

Query: 277 NELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVGATVLTGPVLIGITESYLDAIN 336
           +   RL       L        + + KFV E  R                   +Y     
Sbjct: 62  SGTLRL----FWTLL---SKQEEMVQKFVEEVLRI------------------NY----- 91

Query: 337 NGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSKPPEEVALGEAHEAAVQKALAVY 396
                 + S  +     E R+     T  Y+   DR                      +Y
Sbjct: 92  ----KFLMSPIK----TEQRQPSMM-TRMYIEQRDR----------------------LY 120

Query: 397 NAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSD 456
           N                 Q F        K NV           ++    +LR A     
Sbjct: 121 NDN---------------QVF-------AKYNVSRLQPYL---KLRQALLELRPA----- 150

Query: 457 ASIDNVVKVLDG--------LISE----YETSCHGPGK--WQKLATFLQQSSEGPILDLV 502
               NV  ++DG        +  +    Y+  C    K  W  L      +S   +L+++
Sbjct: 151 ---KNV--LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK---NCNSPETVLEML 202

Query: 503 KRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYL--KRY-------DDAIN 553
           ++L+ QI          + S  D+   +K ++   +      L  K Y        + + 
Sbjct: 203 QKLLYQIDPN-------WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-VQ 254

Query: 554 DKKKL-ADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAME 612
           + K   A + + +I  L    ++ R K  +   +  +  +   D    +   LT  +   
Sbjct: 255 NAKAWNAFNLSCKI--L----LTTRFKQVTDFLSAATTTHISLD---HHSMTLTPDEVKS 305

Query: 613 DQVCSEIEVLKSRSTAAEARLAAAREQALSA---QEEVEEWKR-KYGVAVREAKAALEKA 668
             +  +    + +    E      R  ++ A   ++ +  W   K+ V   +    +E +
Sbjct: 306 --LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH-VNCDKLTTIIESS 362

Query: 669 AIVQERTSKEMQQR-ED--VLREEFSSTLAEKVLSYL 702
             V E    E ++  +   V     S+ +   +LS +
Sbjct: 363 LNVLE--PAEYRKMFDRLSVFPP--SAHIPTILLSLI 395

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.5 bits (117), Expect = 4e-06
 Identities = 51/363 (14%), Positives = 104/363 (28%), Gaps = 110/363 (30%)

Query: 403 VGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNV 462
            G  + +Y+ +L   F  AF D         +  C   +Q M + +      S   ID++
Sbjct: 11  TGEHQYQYKDILS-VFEDAFVD---------NFDCKD-VQDMPKSI-----LSKEEIDHI 54

Query: 463 VKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRS 522
           +   D +                  T L +  E      V++ ++        L + Y+ 
Sbjct: 55  IMSKDAVSGTLRL----------FWTLLSKQEEM-----VQKFVE------EVLRINYKF 93

Query: 523 IEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSS 582
           +   M  +K +          Y+++ D   ND +  A    SR+         LR+    
Sbjct: 94  L---MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL----KLRQALLE 146

Query: 583 LS--------------KTVDSLKNEISDWKRKYDQVLTKQKAMEDQV-------CSE--- 618
           L               KT   +  ++      Y      Q  M+ ++       C+    
Sbjct: 147 LRPAKNVLIDGVLGSGKTW--VALDVC---LSYKV----QCKMDFKIFWLNLKNCNSPET 197

Query: 619 -IEVLKSRSTAAEARLAAAREQALSAQEEVEEWK---------RKYGVA------VREAK 662
            +E+L+      +    +  + + + +  +   +         + Y         V+ AK
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257

Query: 663 -----------------AALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSYLSRS 705
                              +         T   +      L  +   +L  K L    + 
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317

Query: 706 LSR 708
           L R
Sbjct: 318 LPR 320

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 59.1 bits (143), Expect = 4e-09
 Identities = 60/314 (19%), Positives = 116/314 (36%), Gaps = 22/314 (7%)

Query: 414  LQKFFRKAFEDHKKNVYMEADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEY 473
            L K  R+  E   K+   E   R     Q  E +L+          +    + + L +E 
Sbjct: 849  LLKVTRQEEEMQAKD---EELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAET 905

Query: 474  ETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQ 533
            E          +LA   Q+  E  + ++  R+ ++       L  + + ++  M  L++Q
Sbjct: 906  ELYAEAEEMRVRLAAKKQEL-EEILHEMEARI-EEEEERSQQLQAEKKKMQQQMLDLEEQ 963

Query: 534  LEDSERYKSEYLKRYDDAINDKKKLADDYTS---RINNLQGENISLREKSSSLSKTV--- 587
            LE+ E  + +       A    KK+ DD      + N L  E   L E+ S L+  +   
Sbjct: 964  LEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEE 1023

Query: 588  DSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEV 647
            +     ++  K K++ ++++ +    +     + L+      E   +   EQ    Q ++
Sbjct: 1024 EEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQI 1083

Query: 648  EEWKRKYGVAVREAKAALEK------AAIVQERTSKEMQQREDVLREEFSS-----TLAE 696
             E K +      E +AAL +            +  +E++     L+E+  S       AE
Sbjct: 1084 AELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAE 1143

Query: 697  KVLSYLSRSLSRAR 710
            K    LS  L   +
Sbjct: 1144 KQKRDLSEELEALK 1157

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 51.4 bits (123), Expect = 1e-06
 Identities = 35/244 (14%), Positives = 80/244 (32%), Gaps = 30/244 (12%)

Query: 442  QSMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSE--GPIL 499
            ++  +KL+    ++D  I  +   +  +  +         K  K    L++        L
Sbjct: 968  EAARQKLQLEKVTADGKIKKMEDDILIMEDQNN-------KLTKERKLLEERVSDLTTNL 1020

Query: 500  DLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLA 559
               +     +   ++        +E  +K  +K  ++ E+ K +               +
Sbjct: 1021 AEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGE-----------S 1069

Query: 560  DDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEI 619
             D   +I  LQ +   L+ + +   + + +    + D   + +  L K + +E    S I
Sbjct: 1070 SDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELE----SHI 1125

Query: 620  EVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM 679
              L+    + +A    A +Q     EE+E  K +              A   + R S   
Sbjct: 1126 SDLQEDLESEKAARNKAEKQKRDLSEELEALKTEL------EDTLDTTATQQELRGSDYK 1179

Query: 680  QQRE 683
               +
Sbjct: 1180 DDDD 1183

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 54.3 bits (131), Expect = 1e-07
 Identities = 41/281 (14%), Positives = 100/281 (35%), Gaps = 37/281 (13%)

Query: 405  LARKKYEGL--------LQKFFRKAFEDHKKNVYMEADIRCSS-AIQSMERKLRAACHSS 455
             AR     L        +QKF R  +   K+       +R ++ A+Q++ R         
Sbjct: 805  QARCYATFLRRTRAAIIIQKFQR-MYVVRKR----YQCMRDATIALQALLRGYLVRNKYQ 859

Query: 456  DASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPI--------------LDL 501
                ++   ++   +  +    H   +  K   +LQ      +              ++ 
Sbjct: 860  MMLREHKSIIIQKHVRGWLARVHYH-RTLKAIVYLQCCYRRMMAKRELKKLKIEARSVER 918

Query: 502  VKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADD 561
             K+L   + ++   L  K        K L +++ + E   S   ++    +   +   ++
Sbjct: 919  YKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEE 978

Query: 562  ---YTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSE 618
                T+R+ +LQ E   LR++         +++     +K + +Q++++ K     + +E
Sbjct: 979  AKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTE 1038

Query: 619  IEVLKSRSTAAEARLAAAREQALSAQE-----EVEEWKRKY 654
             E L  R       +    E+ L  +      ++ + + +Y
Sbjct: 1039 KEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERLRY 1079

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 46.3 bits (109), Expect = 8e-06
 Identities = 17/95 (17%), Positives = 34/95 (35%), Gaps = 25/95 (26%)

Query: 587 VDSLKNE---ISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSA 643
            D L  E   I  W+ +                   + L+    A++      RE+A   
Sbjct: 77  ADRLTQEPESIRKWREEQR-----------------KRLQELDAASKVMEQEWREKA--- 116

Query: 644 QEEVEEWKRKYGVAVREAKAA--LEKAAIVQERTS 676
           ++++EEW ++    V + K    +   A  Q+  +
Sbjct: 117 KKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151

>4akv_A Sorting nexin-33; transport protein, organelle biogenesis; 2.65A {Homo sapiens} Length = 386

 Score = 42.8 bits (100), Expect = 3e-04
 Identities = 27/227 (11%), Positives = 74/227 (32%), Gaps = 15/227 (6%)

Query: 482 KWQKLATFLQQSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYK 541
           +++    FL    +     + KR  ++     +S +L ++   ++  L  + +ED     
Sbjct: 137 QYEGFQHFLSCLDD-KQWKMGKRRAEKDEMVGASFLLTFQIPTEHQDL--QDVEDRVDTF 193

Query: 542 SEYLKRYDDAINDKKKLADDYTSR------------INNLQGENISLREKSSSLSKTVDS 589
             + K+ DD++     +A +   +             +  Q  + S +      S+ ++S
Sbjct: 194 KAFSKKMDDSVLQLSTVASELVRKHVGGFRKEFQKLGSAFQAISHSFQMDPPFCSEALNS 253

Query: 590 LKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEE 649
             +          ++  +Q   +     +   L     +    +   ++ A +  +E + 
Sbjct: 254 AISHTGRTYEAIGEMFAEQPKNDLFQMLDTLSLYQGLLSNFPDIIHLQKGAFAKVKESQR 313

Query: 650 WKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE 696
              +  +   EA     +  +V      EM         +F   +  
Sbjct: 314 MSDEGRMVQDEADGIRRRCRVVGFALQAEMNHFHQRRELDFKHMMQN 360

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 41.2 bits (96), Expect = 7e-04
 Identities = 29/196 (14%), Positives = 74/196 (37%), Gaps = 6/196 (3%)

Query: 499 LDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKL 558
           +D +K+ +  +  ++ + + +    E + K  + + +  E       K+     ++  K 
Sbjct: 1   MDAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKY 60

Query: 559 ---ADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAME--- 612
                D   ++   + +        +SL++ +   + E+   + +    L K +  E   
Sbjct: 61  SEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAA 120

Query: 613 DQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQ 672
           D+    ++V++SR+   E ++     Q   A+   E+  RKY    R+           +
Sbjct: 121 DESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAE 180

Query: 673 ERTSKEMQQREDVLRE 688
           ER      +  ++  E
Sbjct: 181 ERAELSEGKCAELEEE 196

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	716
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	100.0
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	100.0
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	100.0
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	99.42
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	99.4
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	98.94
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	98.82
1gk6_A	59	Vimentin; intermediate filament, dimer, parallel c	98.59
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	98.59
2xv5_A	74	Lamin-A/C; structural protein, intermediate filame	98.36
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.82
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	97.81
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.78
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	97.76
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.67
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.66
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	97.53
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	97.51
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	97.5
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	97.49
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	97.47
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	97.45
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.43
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.42
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.36
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.3
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.25
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	97.17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.13
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.12
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.1
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.08
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.07
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.07
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	97.07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.06
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	97.05
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.05
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	97.04
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	97.03
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.02
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.02
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.01
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.01
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	96.99
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.99
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.99
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.98
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	96.98
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.95
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.94
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	96.94
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.94
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.91
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	96.91
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.91
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.91
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.9
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.9
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.89
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	96.89
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.87
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	96.86
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.85
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.85
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	96.84
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	96.83
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.82
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	96.81
1wxq_A	397	GTP-binding protein; structural genomics, riken st	96.81
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.81
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.8
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.8
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	96.8
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	96.79
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.79
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.77
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.77
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	96.77
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	96.76
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.76
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.76
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.75
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.75
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	96.74
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	96.74
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	96.73
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	96.73
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.71
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.71
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.68
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.68
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.68
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.67
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.66
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.64
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.64
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.63
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.63
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.61
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	96.6
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.59
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.59
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	96.59
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.57
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.57
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.55
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.55
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	96.55
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.54
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.54
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	96.53
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	96.52
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.5
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	96.5
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.5
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	96.48
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.48
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.47
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.45
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	96.44
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	96.44
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	96.43
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	96.42
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.42
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.41
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	96.4
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.4
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	96.4
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.4
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.4
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.39
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.38
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.38
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	96.37
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.37
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	96.37
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.36
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	96.34
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	96.34
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	96.34
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.34
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	96.33
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	96.32
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	96.31
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	96.31
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	96.29
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	96.29
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.27
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	96.27
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.26
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.24
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.23
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	96.21
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.21
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	96.21
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.2
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.16
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	96.16
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.16
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	96.15
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	96.13
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	96.12
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.12
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.11
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.1
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	96.08
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	96.06
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.05
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.02
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	95.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.95
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.94
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	95.93
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	95.87
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	95.87
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.86
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.8
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	95.71
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	95.66
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	95.66
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.65
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	95.64
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.62
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	95.55
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	95.53
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	95.4
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	95.35
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.31
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.29
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	95.28
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	95.26
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	95.25
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.24
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.22
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	95.21
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	95.17
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	95.13
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.12
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.11
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	95.11
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.06
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.99
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	94.98
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	94.98
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	94.92
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	94.91
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.9
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	94.86
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.81
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.77
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	94.77
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	94.73
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	94.71
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	94.66
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	94.63
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	94.58
1wb1_A	482	Translation elongation factor SELB; selenocysteine	94.52
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.44
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	94.43
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	94.38
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	94.31
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.3
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	94.26
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	94.16
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.1
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	94.08
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.03
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	94.02
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	94.01
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.0
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	93.97
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.86
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	93.86
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.78
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	93.75
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	93.75
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	93.68
1g6h_A	257	High-affinity branched-chain amino acid transport	93.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.66
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.63
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.61
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.59
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.58
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	93.56
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.55
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.53
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.51
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.5
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.48
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.45
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.44
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.43
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.42
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.39
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.33
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.29
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.29
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.28
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	93.25
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.24
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.23
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.19
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.19
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	93.16
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.12
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	93.1
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.07
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.07
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.03
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.0
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.99
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.95
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	92.94
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.94
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	92.93
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	92.89
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	92.89
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	92.85
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	92.8
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	92.73
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	92.7
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.66
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	92.61
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	92.54
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.53
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.49
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.47
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	92.4
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	92.38
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	92.33
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	92.3
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.27
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	92.2
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.18
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	92.18
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	92.15
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.13
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.1
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.06
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	92.03
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.99
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.97
2xxa_A	433	Signal recognition particle protein; protein trans	91.95
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	91.92
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	91.91
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	91.9
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.81
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	91.75
3etw_A	119	Adhesin A; antiparallel helix-loop-helix, leucine	91.71
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	91.7
4a74_A	231	DNA repair and recombination protein RADA; hydrola	91.66
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	91.65
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	91.58
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	91.57
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	91.53
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	91.53
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	91.48
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.34
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.26
1p9r_A	418	General secretion pathway protein E; bacterial typ	91.25
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	91.23
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	91.18
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.13
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.12
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	91.0
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.93
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	90.92
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	90.91
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	90.89
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	90.85
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	90.8
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	90.78
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	90.76
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	90.76
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	90.66
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	90.57
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	90.36
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	90.31
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	90.18
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	90.12
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	90.08
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	89.94
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	89.92
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	89.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	89.9
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	89.89
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	89.75
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	89.73
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	89.71
2ewv_A	372	Twitching motility protein PILT; pilus retraction	89.64
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	89.61
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	89.61
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	89.56
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	89.54
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	89.33
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	89.28
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	89.25
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	88.93
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	88.81
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	88.75
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	88.71
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	88.65
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	88.59
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	88.47
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	88.35
2og2_A	359	Putative signal recognition particle receptor; nuc	88.3
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	88.24
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	88.14
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	88.09
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	88.04
2p22_C	192	Protein SRN2; endosome, trafficking complex, VPS23	88.03
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	87.96
2hf9_A	226	Probable hydrogenase nickel incorporation protein	87.83
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	87.74
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	87.72
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	87.71
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	87.52
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	87.48
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	87.44
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	87.4
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	87.11
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	87.1
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	86.98
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	86.94
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	86.92
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	86.89
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	86.81
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	86.75
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	86.75
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	86.69
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	86.54
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	86.46
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	86.33
3kta_A	182	Chromosome segregation protein SMC; structural mai	86.28
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	86.26
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	86.25
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	86.09
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	85.98
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	85.71
2cvh_A	220	DNA repair and recombination protein RADB; filamen	85.65
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	85.64
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	85.53
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	85.52
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	85.41
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	85.4
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	85.36
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	85.32
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	85.29
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	85.22
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	85.17
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	85.14
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	85.09
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	84.93
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	84.88
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	84.72
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	84.71
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	84.68
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	84.6
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	84.49
2b5u_A	551	Colicin E3; high resolution colicin E3, ribosome i	84.45
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	84.43
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	84.35
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	84.24
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	84.03
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	84.03
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	83.86
2efl_A	305	Formin-binding protein 1; EFC domain, structural g	83.75
1via_A	175	Shikimate kinase; structural genomics, transferase	83.63
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	83.53
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	83.45
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	83.41
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	83.29
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	83.29
3bos_A	242	Putative DNA replication factor; P-loop containing	83.28
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	83.19
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	83.19
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	83.09
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	83.08
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	83.02
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	82.96
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	82.9
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	82.9
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	82.83
2avr_X	119	Adhesion A; antiparallel helix-loop-helix, leucine	82.7
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	82.65
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	82.32
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	82.31
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	82.29
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	82.24
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	82.18
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	81.97
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	81.88
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	81.86
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	81.79
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	81.71
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	81.68
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	81.67
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	81.66
3cl3_D	130	NF-kappa-B essential modulator; death effector dom	81.35
3r6n_A	450	Desmoplakin; spectrin repeat, SH3 domain, cell adh	81.33
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	81.19
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	81.17
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	81.13
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	81.12
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	81.08
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	81.05
3bas_A	89	Myosin heavy chain, striated muscle/general contro	81.04
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	80.83
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	80.81
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	80.8
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	80.79
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	80.73
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	80.55
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	80.53
3tul_A	158	Cell invasion protein SIPB; translocator, type thr	80.51
2vli_A	183	Antibiotic resistance protein; transferase, tunica	80.48
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	80.33
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	80.18
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	80.14

>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=100.00  E-value=8.1e-95  Score=829.80  Aligned_cols=519  Identities=28%  Similarity=0.486  Sum_probs=482.7

Q ss_pred             CCCCCeeEEEeCCCCceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccc
Q 005055           38 GPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAP  117 (716)
Q Consensus        38 ~~~~pi~LI~~d~~~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p  117 (716)
                      ..+.|||||.++ +|.|.+|++|+++|..++.|+.+|+|+|++++|||||+|.|+|...||++++++.+||+|||+|+.|
T Consensus         6 ~m~~pv~li~~~-~~~l~~~~eal~~L~~i~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~   84 (592)
T 1f5n_A            6 HMTGPMCLIENT-NGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVP   84 (592)
T ss_dssp             -CCSCEEEEEEE-TTEEEECHHHHHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEE
T ss_pred             CCCCCeEEEEeC-CCcEEECHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecc
Confidence            346799999987 7999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             cccccCCCCceeEEEEeCCCCccccc-CCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHHHHHHHHHHHhcC--
Q 005055          118 LKRTALDGTEYNLLLLDSEGIDAYDQ-TGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASG--  194 (716)
Q Consensus       118 ~~~~~~~g~~~~vvlLDTEGl~~~~~-~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~el~~~i~~k~~~--  194 (716)
                      ++.    +....++|+||+|+++... +..+|+++|+|+++|||++|||+.|.|++++++.|++++++++.++.++++  
T Consensus        85 ~~~----~~~~~i~LiDTpGi~~~~~~~~~~~~~~fala~llss~lv~n~~~~i~~~dl~~l~~v~e~~~~l~~k~~~~~  160 (592)
T 1f5n_A           85 HPK----KPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDE  160 (592)
T ss_dssp             CSS----STTCEEEEEEECCBCCGGGCCCTTHHHHHHHHHHHCSEEEEEEESCSSHHHHHTTHHHHTHHHHCBSCCC---
T ss_pred             ccc----CCCceEEEecCCCcCcccccchhHHHHHHHHHHHhcCeEEEECCCCccHHHHHHHHHHHHHhhhhhcccCccc
Confidence            864    2346799999999988776 667899999999999999999999999999999999999999999887652  


Q ss_pred             ---CCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHHHHhhCCCCeEEeecC
Q 005055          195 ---GKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVR  271 (716)
Q Consensus       195 ---~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F~~~~cf~l~~  271 (716)
                         +..+..+++.|||+|+||||||++++..+|+++|+++||+++|+..+|.++.+...|.+|.+|++|||+++||+|||
T Consensus       161 ~~~~~~~~~~~~~~fP~~~wvvRD~~l~~~~~g~~~t~~eyLe~~L~~~~~~~~~~~~~n~~R~~I~~~F~~~~cf~lp~  240 (592)
T 1f5n_A          161 NENEVEDSADFVSFFPDFVWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDR  240 (592)
T ss_dssp             ----CCGGGGHHHHCCEEEEEEETCCCCCCCSSSCCCHHHHHHHHTCCCCCCSHHHHHHHHHHHHHHHHCSCEEEEECCC
T ss_pred             ccccccchhhhhccCCceEEEEecccchhccCCCCCCHHHHHHHHHhhccCCChhhHhhhhHHHHHHHhCCCCcEEEeCC
Confidence               22345567889999999999999999889999999999999999999988999999999999999999999999999


Q ss_pred             CCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHhccCCcccc-CCcccchhhHHHHHHHHHHHHhcCCCCCccchHHHH
Q 005055          272 PLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAINNGAVPTISSSWQSV  350 (716)
Q Consensus       272 P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~~~~pK~~-~g~~ltG~~l~~l~~~yv~ain~g~vP~i~s~~~~~  350 (716)
                      |+.+. .+++|+.++.++|+|+|+++++.||++|++.++||++ +|.++||++|+.|++.||+|||+|.+|+++|+|.++
T Consensus       241 P~~~~-~l~~L~~~~~~~L~peF~~~l~~l~~~i~~~~~~K~~~gg~~vtG~~L~~l~~~yv~ain~g~vP~~~s~~~a~  319 (592)
T 1f5n_A          241 PVHRR-KLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYVNAISSGDLPCMENAVLAL  319 (592)
T ss_dssp             CSCGG-GGGGGGGSCGGGSCHHHHHHHHHHHHHHHHHCCCCEETTTEECBHHHHHHHHHHHHHHHHHTSCCBHHHHHHHH
T ss_pred             CCcHH-HHhhhccCChhhCCHHHHHHHHHHHHHHHccccceeecCCccccHHHHHHHHHHHHHHHhCCCCCCcchHHHHH
Confidence            99988 8999999999999999999999999999999999999 678999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhcccC--CCCCh-HHHHHHHHHHHHHHHHHhhhccCCChhhhHHHHHHHHHHHHHHHHHHHH
Q 005055          351 EEAECRRAYDSATETYMSTFDRS--KPPEE-VALGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKK  427 (716)
Q Consensus       351 ~e~e~~~a~~~A~~~Y~~~m~~~--~p~~e-~eL~~~H~~~~~~Al~~F~~~s~g~~~~~~~~~~~L~~~l~~~~e~~~~  427 (716)
                      ++.+|.+|+++|+++|.+.|.+.  +|.++ ++|.+.|..|.++|+++|++.+||  +..++|+++|...|.+.+++|++
T Consensus       320 a~~e~~~av~~A~~~Y~~~M~~~~~~P~~~~~eL~~~H~~~~~~Al~~F~~~~~~--d~~~~~~~~L~~~i~~~~~~~~~  397 (592)
T 1f5n_A          320 AQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLHRDSEREAIEVFIRSSFK--DVDHLFQKELAAQLEKKRDDFCK  397 (592)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCSSCSSHHHHHHHHHHHHHHHHHHHHHHCCC--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHhcch--hhHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999874  36655 899999999999999999999997  56789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH----HHHHHHhhccCCCCchHHHHHHHHHHHHHHhccc-CCCchhHHHHHHHh--hhccchHHH
Q 005055          428 NVYMEADIRCSSAIQS----MERKLRAACHSSDASIDNVVKVLDGLISEYETSC-HGPGKWQKLATFLQ--QSSEGPILD  500 (716)
Q Consensus       428 ~n~~~s~~~C~~~l~~----le~~l~~~~~~~~~~~~~~~~~l~~ll~eY~~~~-~GP~K~~~L~~FLq--~~~~~~il~  500 (716)
                      .|+.+|..+|+++|+.    |+++|+++.+..+++|+.|.++++.++.+|+..| +||.++.+|++||+  ..++++|++
T Consensus       398 ~N~~~s~~~C~~ll~~l~~~l~~~i~~g~~~~p~g~~~~~~~~~~~~~~Y~~~~~kg~~~~~vl~~fl~~~~~~~~~ilq  477 (592)
T 1f5n_A          398 QNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQ  477 (592)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSTTHHHHHHHHHHHHHHHHHHSSCCCTTHHHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCcCCCCcHHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999986    5666677888889999999999999999999999 89999999999998  666799999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 005055          501 LVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSR  565 (716)
Q Consensus       501 ~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~  565 (716)
                      +|+.|+++ ++++++.+++.++++.+.+.|++++.+.++.|+.++++|+++|.+|+++||+-+.+
T Consensus       478 ~d~~l~~~-~k~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~~~~~~~~e~~~ql~~kme~~~~~  541 (592)
T 1f5n_A          478 TDQTLTEK-EKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQ  541 (592)
T ss_dssp             HCSSSCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999 99999999999999999999999999999999999999999999999999876655

>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=100.00  E-value=3.7e-89  Score=755.76  Aligned_cols=382  Identities=21%  Similarity=0.307  Sum_probs=348.8

Q ss_pred             CCCCCCeeEEEeCCCCceeeCHHHHH-Hhhc---cCCCEEEEEeeCCCCCChhHHHHHhh-------CC---------CC
Q 005055           37 TGPARPIRLVYCDEKGKFRMDPEAVA-ALQL---VKEPIGVVSVCGRARQGKSFILNQLL-------GR---------SS   96 (716)
Q Consensus        37 ~~~~~pi~LI~~d~~~~l~v~~eAl~-~L~~---i~~pV~VVsV~G~~rtGKS~LlN~ll-------g~---------~~   96 (716)
                      +.+++|||||+++++|+|.||++|++ +|..   +++||+||||+|++|||||||||+|+       |.         ..
T Consensus        29 ~~~~~pvqlV~~~~~~~l~ln~eAl~~iL~~~~i~~~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~  108 (457)
T 4ido_A           29 VKKAGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLT  108 (457)
T ss_dssp             --CCCEEEEEEECTTSCEEECHHHHHHHHSSTTTTTSBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCC
T ss_pred             cCCCCceeEEEECCCCCEEECHHHHHHHHhccccCCCceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCC
Confidence            57899999999988899999999999 5655   47899999999999999999999775       22         57


Q ss_pred             ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhh
Q 005055           97 GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAID  176 (716)
Q Consensus        97 gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~  176 (716)
                      ||+||++++|||+|||||+.|+....|+|++++||||||||+++.+.+.++|++||+|++||||++|||++|+|++++|+
T Consensus       109 gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlllDTEG~~d~~~~~~~d~~ifaLa~LLSS~~IyN~~~~i~~~~L~  188 (457)
T 4ido_A          109 GFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQ  188 (457)
T ss_dssp             SSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEEEECCBTCTTCCHHHHHHHHHHHHHHCSEEEEEEESSCCHHHHH
T ss_pred             CceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEEeccCCCCcccCccccHHHHHHHHHHhhheeecccccCCHHHHH
Confidence            99999999999999999999998878899999999999999999988888999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHH
Q 005055          177 RLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDS  256 (716)
Q Consensus       177 ~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~  256 (716)
                      +|++|+++++.|..         +.+..|||+|+||||||+++++.+|..+|+++||+++|+..+|..   .+.|.+|++
T Consensus       189 ~L~~~tel~~~i~~---------~~~~~~Fp~f~wlvRDf~l~l~~~~g~~t~~eyLe~~L~~~~g~~---~~~~~iR~~  256 (457)
T 4ido_A          189 HLQLFTEYGRLAME---------ETFLKPFQSLIFLVRDWSFPYEFSYGADGGAKFLEKRLKVSGNQH---EELQNVRKH  256 (457)
T ss_dssp             HHHHHHHHHHHHSC---------CCSSCSEEEEEEEEETCCCTTTSCSBHHHHHHHHHHHHCCCTTSC---HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh---------hcccccCCceEEEEecCCccccccCCCCCHHHHHHHHhccCCCCC---HHHHHHHHH
Confidence            99999999998741         235678999999999999999888889999999999999887754   457889999


Q ss_pred             HHhhCCCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHhcc--CCccccCCcccchhhHHHHHHHHHHH
Q 005055          257 IRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFER--TRPKQVGATVLTGPVLIGITESYLDA  334 (716)
Q Consensus       257 i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~~--~~pK~~~g~~ltG~~l~~l~~~yv~a  334 (716)
                      |++|||+++||+||||+.++..+++++ .+.++|+|+|+++++.||++|++.  ++||+++|.+|||++|+.|++.||+|
T Consensus       257 I~~~F~~~~Cf~lp~P~~~~~~~~~~~-~~l~dL~peF~~ql~~l~~~I~~~~~l~~K~i~G~~vtg~~L~~lv~~Yv~a  335 (457)
T 4ido_A          257 IHSCFTNISCFLLPHPGLKVATNPNFD-GKLKEIDDEFIKNLKILIPWLLSPESLDIKEINGNKITCRGLVEYFKAYIKI  335 (457)
T ss_dssp             HHHHEEEEEEEECCCCCHHHHHCTTCC-CCGGGSCHHHHHHHHHHHHHHHSTTTCCCCEETTEECBHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCcEEEcCCCchhhhhchhhh-cChhhCCHHHHHHHHHHHHHHhccccccccccCCEeecHHHHHHHHHHHHHH
Confidence            999999999999999998776666664 367899999999999999999984  55999999999999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccC----CC-CChHHHHHHHHHHHHHHHHHhhhcc-CCChhhhH
Q 005055          335 INNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRS----KP-PEEVALGEAHEAAVQKALAVYNAGA-VGVGLARK  408 (716)
Q Consensus       335 in~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~----~p-~~e~eL~~~H~~~~~~Al~~F~~~s-~g~~~~~~  408 (716)
                      ||+|.+||++|+|.++++++|.+|+++|+++|.+.|.+.    +| .++++|++.|..|+++|+++|++.+ +|..+..+
T Consensus       336 in~g~vP~~esa~~a~ae~en~~Av~~A~~~Y~~~M~~~~~~~~P~~~~~eL~~~H~~~~~~Al~~F~~~~~~g~~d~~~  415 (457)
T 4ido_A          336 YQGEELPHPKSMLQATAEANNLAAVATAKDTYNKKMEEICGGDKPFLAPNDLQTKHLQLKEESVKLFRGVKKMGGEEFSR  415 (457)
T ss_dssp             HHSSSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSCCCCHHHHHHHHHHHHHHHHHHHHHSCCTTHHHHHH
T ss_pred             hcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhcccccHHHHH
Confidence            999999999999999999999999999999999999874    35 3679999999999999999999886 78888999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 005055          409 KYEGLLQKFFRKAFEDHKKNVYM  431 (716)
Q Consensus       409 ~~~~~L~~~l~~~~e~~~~~n~~  431 (716)
                      +|+++|...|++++++|++.|+.
T Consensus       416 ~~~~~L~~~l~~~~~~~~~~Ne~  438 (457)
T 4ido_A          416 RYLQQLESEIDELYIQYIKHNDS  438 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999964

>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=100.00  E-value=1.1e-79  Score=684.23  Aligned_cols=382  Identities=21%  Similarity=0.305  Sum_probs=345.9

Q ss_pred             CCCCCCeeEEEeCCCCceeeCHHHHH-Hhhc---cCCCEEEEEeeCCCCCChhHHHHHhhCC----------------CC
Q 005055           37 TGPARPIRLVYCDEKGKFRMDPEAVA-ALQL---VKEPIGVVSVCGRARQGKSFILNQLLGR----------------SS   96 (716)
Q Consensus        37 ~~~~~pi~LI~~d~~~~l~v~~eAl~-~L~~---i~~pV~VVsV~G~~rtGKS~LlN~llg~----------------~~   96 (716)
                      ...++|||||.++++|+|.||++|++ +|..   ++.||+||||+|++|+|||||||+|+|.                .+
T Consensus        29 ~~~~~piqlv~~~~~~~l~v~~eal~~iL~~~~~~~~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~  108 (447)
T 3q5d_A           29 VKKAGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLT  108 (447)
T ss_dssp             CCCCCEEEEEEECTTSCEEECHHHHHHHHCCTTTTTSBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCC
T ss_pred             ccCCCceeEEEECCCCCEEECHHHHHHHHhccccCCCceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccc
Confidence            47789999999988899999999995 7765   5789999999999999999999999973                57


Q ss_pred             ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhh
Q 005055           97 GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAID  176 (716)
Q Consensus        97 gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~  176 (716)
                      ||+||+|+++||+|||||+.|+....|+|++++||||||||+++.+.+.++|++||+|++||||++|||++|.|++++++
T Consensus       109 ~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vvllDTeG~~~~~~~~~~d~~ifal~~lLSs~~IyN~~~~i~~~~l~  188 (447)
T 3q5d_A          109 GFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQ  188 (447)
T ss_dssp             SSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEEEEEEECCCSSHHHHHHHHHHHHHHHHHCSEEEEEESSSCCHHHHH
T ss_pred             eecCCCCCCCceeEEEEecCccccccCCCCcceEEEEcCCcccccccchhhhHHHHHHHHHHhhHHHHhhcccccHHHHH
Confidence            99999999999999999999998877889889999999999998888888999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHH
Q 005055          177 RLSLVTQMTKHIRIRASGGKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDS  256 (716)
Q Consensus       177 ~L~~v~el~~~i~~k~~~~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~  256 (716)
                      +|++|+++++++..         ..+..+||+|+||||||++++..+|+.+|+++||+++|+..++.   ..+.|.+|++
T Consensus       189 ~L~~~~e~~~~~~~---------~~~~~~fp~l~wvvRD~~~~l~~~~g~~t~~eyLe~~L~~~~~~---~~~~~~~r~~  256 (447)
T 3q5d_A          189 HLQLFTEYGRLAME---------ETFLKPFQSLIFLVRDWSFPYEFSYGADGGAKFLEKRLKVSGNQ---HEELQNVRKH  256 (447)
T ss_dssp             HHHHHHHHHHHTSC---------CCSSCSEEEEEEEEEEECCTTTSCSBHHHHHHHHHHHHHSSTTC---SSSSCCHHHH
T ss_pred             HHHHHHHHHHHHHH---------hhcccCCCceEEEEeeccccccccCCCCCHHHHHHHHHhhccCc---cHHHHHHHHH
Confidence            99999999987631         12356799999999999999888777789999999999977543   4456789999


Q ss_pred             HHhhCCCCeEEeecCCCCChhhhhcccCCCCCCCChHHHHHHHHHHHHHhc--cCCccccCCcccchhhHHHHHHHHHHH
Q 005055          257 IRALFPDRECFTLVRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFE--RTRPKQVGATVLTGPVLIGITESYLDA  334 (716)
Q Consensus       257 i~~~F~~~~cf~l~~P~~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~--~~~pK~~~g~~ltG~~l~~l~~~yv~a  334 (716)
                      |++|||+++||+||||+.+......++ .+.++|+|+|+++++.||++|++  +.+||.++|.+|||++|+.|++.||++
T Consensus       257 i~~~F~~~~cf~lp~P~~~v~~~~~~~-~~l~~L~~~F~~~l~~l~~~i~~~~~~~~K~~~G~~vtg~~L~~~~~~yv~a  335 (447)
T 3q5d_A          257 IHSCFTNISCFLLPHPGLKVATNPNFD-GKLKEIDDEFIKNLKILIPWLLSPESLDIKEINGNKITCRGLVEYFKAYIKI  335 (447)
T ss_dssp             HHHHEEEEEEEEEECCCHHHHHCTTCC-SBGGGSCHHHHHHHHHHHHHHHSTTTCCCCEETTEECBHHHHHHHHHHHHHH
T ss_pred             HHHhCCCceEEeccCcccchhhhhhhh-cchhhccHHHHHHHHHHHHHhcCcccccccccCCEeecHHHHHHHHHHHHHH
Confidence            999999999999999997654444443 36789999999999999999996  467888999999999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccC----CCC-ChHHHHHHHHHHHHHHHHHhhhcc-CCChhhhH
Q 005055          335 INNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRS----KPP-EEVALGEAHEAAVQKALAVYNAGA-VGVGLARK  408 (716)
Q Consensus       335 in~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~----~p~-~e~eL~~~H~~~~~~Al~~F~~~s-~g~~~~~~  408 (716)
                      ||+|.+|+++|+|+++++.+|.+|+++|++.|.+.|++.    .|+ ++++|.+.|..++++|++.|+..+ +|..++.+
T Consensus       336 in~~~~P~~~s~~~~~a~~~~~~a~~~A~~~Y~~~m~~~~~~~~p~~~~~~L~~~h~~~~~~al~~F~~~~~~g~~~~~~  415 (447)
T 3q5d_A          336 YQGEELPHPKSMLQATAEANNLAAVATAKDTYNKKMEEICGGDKPFLAPNDLQTKHLQLKEESVKLFRGVKKMGGEEFSR  415 (447)
T ss_dssp             HHHSCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSCCCHHHHHHHHHHHHHHHHHHHTTSCCSSCHHHHH
T ss_pred             HhCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhccccHHHHH
Confidence            999999999999999999999999999999999999873    343 679999999999999999999986 88889999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 005055          409 KYEGLLQKFFRKAFEDHKKNVYM  431 (716)
Q Consensus       409 ~~~~~L~~~l~~~~e~~~~~n~~  431 (716)
                      +|+++|...|++.+++|++.|+.
T Consensus       416 ~~~~~L~~~l~~~~~~~~~~Ne~  438 (447)
T 3q5d_A          416 RYLQQLESEIDELYIQYIKHNDS  438 (447)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999965

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=99.42  E-value=8.5e-13  Score=122.93  Aligned_cols=111  Identities=18%  Similarity=0.217  Sum_probs=84.0

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSR----STAAEARLAAAREQ  639 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r----~~~~eerl~~~~~q  639 (716)
                      +||+.|+.++.......++.|.++|.|++++++.++.+   |+..+..+..+..+|++++.+    +..+...++.++.+
T Consensus        11 ~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~e   90 (129)
T 3tnu_B           11 SWYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEEA   90 (129)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            68999999999999999999999999999999999998   899999999999999999987    67888999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005055          640 ALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKE  678 (716)
Q Consensus       640 l~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~  678 (716)
                      +..++.|++++.++|+.+| ++|.+||.+|++||+|||+
T Consensus        91 L~~~r~e~~~ql~EYq~Ll-nvKl~Ld~EIatYRkLLEg  128 (129)
T 3tnu_B           91 LQKAKQDMARLLREYQELM-NTKLALDVEIATYRKLLEG  128 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHCc
Confidence            9999999999999999999 8999999999999999974

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=99.40  E-value=1.3e-12  Score=122.05  Aligned_cols=111  Identities=22%  Similarity=0.278  Sum_probs=79.1

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLKSR----STAAEARLAAAREQ  639 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~~r----~~~~eerl~~~~~q  639 (716)
                      +||+.|+.++.......++.+.+++.|++++++.++.+   |+..+..+..+..+|++++.+    +..++..++.++.+
T Consensus        13 ~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~e   92 (131)
T 3tnu_A           13 EWFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEEQ   92 (131)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999998   899999999999999999987    67888999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005055          640 ALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKE  678 (716)
Q Consensus       640 l~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~  678 (716)
                      +..++.|++++.++|+.++ ++|.+||.+|++||+|||+
T Consensus        93 L~~~r~em~~ql~EYq~Ll-~vKl~Ld~EIatYRkLLEG  130 (131)
T 3tnu_A           93 LAQLRCEMEQQNQEYKILL-DVKTRLEQEIATYRRLLEG  130 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHCc
Confidence            9999999999999999999 8999999999999999974

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=98.94  E-value=4.5e-09  Score=90.34  Aligned_cols=74  Identities=11%  Similarity=0.189  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 005055          605 LTKQKAMEDQVCSEIEVLKSR----STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM  679 (716)
Q Consensus       605 i~~~k~~~~~~~~~i~~l~~r----~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~  679 (716)
                      |+..+..+..+..+|++++.+    ...++..++.++.++..++.|++.+.++|+.++ ++|.+||.+|+|||++||+-
T Consensus         3 l~~l~~~~~sLE~~l~e~e~~~~~~~~~~q~~i~~lE~eL~~~r~e~~~q~~EYq~Ll-nvK~~Ld~EIatYRkLLEGE   80 (84)
T 1gk4_A            3 VDALKGTNESLERQMREMEENFAVEAANYQDTIGRLQDEIQNMKEEMARHLREYQDLL-NVKMALDIEIATYRKLLEGE   80 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHHcCC
Confidence            455666677788888888876    667788899999999999999999999999999 89999999999999999864

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=98.82  E-value=1.2e-08  Score=88.12  Aligned_cols=68  Identities=10%  Similarity=0.103  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 005055          612 EDQVCSEIEVLKSR----STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQ  680 (716)
Q Consensus       612 ~~~~~~~i~~l~~r----~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q  680 (716)
                      ...+...|++++.+    +..+...++.++.++..++.|++++.++|+.++ ++|.+||.+|++||++||+-.
T Consensus        12 ~~~Le~~l~e~E~~~~~~l~~~q~~i~~lE~el~~~r~e~~~ql~EYq~Ll-nvK~~Le~EIatYRkLLEGEe   83 (86)
T 1x8y_A           12 LAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELL-DIKLALDMEIHAYRKLLEGEE   83 (86)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHHcCCc
Confidence            33445555555544    445667788888999999999999999999999 899999999999999999754

>1gk6_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, leucine zipper, fusion protein; 1.9A {Saccharomyces cerevisiae} SCOP: h.1.20.1

Probab=98.59  E-value=1.3e-07  Score=75.61  Aligned_cols=52  Identities=15%  Similarity=0.164  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005055          626 STAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKE  678 (716)
Q Consensus       626 ~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~  678 (716)
                      +..++..++.++.++..++.|++.+.++|+.++ ++|.+||.+|++||+++|+
T Consensus         2 l~~~q~~i~~le~el~~~r~e~~~q~~eYq~Ll-niK~~Le~EIatYRkLLEg   53 (59)
T 1gk6_A            2 MKQLEDKVEELLSKNYHLENEVARLKKLVGDLL-NVKMALDIEIATYRKLLEG   53 (59)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhHHHHHHHHHHHcc
Confidence            457888999999999999999999999999999 8999999999999999985

>2xv5_A Lamin-A/C; structural protein, intermediate filaments, nuclear membrane LEFT-handed coiled coil, right-handed coiled coil; HET: MSE; 2.40A {Homo sapiens}

Probab=98.36  E-value=9.3e-07  Score=73.69  Aligned_cols=52  Identities=12%  Similarity=0.124  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 005055          627 TAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM  679 (716)
Q Consensus       627 ~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~  679 (716)
                      ......++.++.++..++.|++.+.++|+.++ ++|.+||.+|++||++||.-
T Consensus         8 ~~~~~~i~~lE~eL~~~r~e~~~ql~EYq~Ll-niKl~Le~EIatYRkLLEGE   59 (74)
T 2xv5_A            8 DTSRRLLAEKEREMAEMRARMQQQLDEYQELL-DIKLALDMEIHAYRKLLEGE   59 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhcC
Confidence            36677788888999999999999999999999 89999999999999999864

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.82  E-value=0.049  Score=63.83  Aligned_cols=37  Identities=32%  Similarity=0.519  Sum_probs=27.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCccc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCT  108 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~T  108 (716)
                      .+-..|+|+|.+++|||+|+|.|+|.. -++++.  .|||
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~-~~~v~~--~p~T  103 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGEN-LLPSDV--NPCT  103 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSS-CSCCCC--CTTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC-CCCCCC--CCCc
Confidence            344569999999999999999999874 233433  3555

>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=97.78  E-value=7.6e-05  Score=78.90  Aligned_cols=62  Identities=32%  Similarity=0.476  Sum_probs=45.0

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..|-+.|+|+|..++|||+|+|+|+|..  |...+    ++.....|+..+.          ....++|+||+|+...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~--~~i~s~~~~tT~~~~~~~~~~~----------~~~~i~lvDTPG~~~~   72 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTK--VSIISPKAGTTRMRVLGVKNIP----------NEAQIIFLDTPGIYEP   72 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSC--CSCCCSSSCCCCSCEEEEEEET----------TTEEEEEEECCCCCCC
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCC--ccccCCCCCceeeEEEEEEecC----------CCCeEEEEECcCCCcc
Confidence            4578999999999999999999999986  43222    2223345665542          1367999999998643

>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=97.76  E-value=0.0001  Score=75.29  Aligned_cols=61  Identities=18%  Similarity=0.385  Sum_probs=43.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccC----CCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      +..-|+|+|..++|||+|+|+|+|.. +|..+..    +..+..|+..|.         |  ..+.|+||+|+....
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~-~~~~~~~~~~~t~~~~~~~~~~~---------~--~~i~iiDTpG~~~~~   85 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQ-AFESKLGSQTLTKTCSKSQGSWG---------N--REIVIIDTPDMFSWK   85 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSC-CSCCCTTSCCCCCSCEEEEEEET---------T--EEEEEEECCGGGGSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCC-CcccCCCCCceeeeeEEEEEEeC---------C--CEEEEEECcCCCCCC
Confidence            44568999999999999999999874 4544332    233344555552         2  568999999986543

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.67  E-value=0.012  Score=57.54  Aligned_cols=116  Identities=17%  Similarity=0.172  Sum_probs=75.4

Q ss_pred             HHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 005055          569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV-------LTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQAL  641 (716)
Q Consensus       569 l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~-------i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~  641 (716)
                      |+.+...++.+..-+...+..++.|..+|+.+|+.+       ++..++.-..+......|+.++..+|-..-+++++.-
T Consensus        47 LE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R  126 (189)
T 2v71_A           47 LEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKR  126 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            444455555555666666666666667777777766       3444444444555555555667777777777778877


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHH
Q 005055          642 SAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDV  685 (716)
Q Consensus       642 ~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~  685 (716)
                      .+-.=.++.-.||..++ +..|.||-++.--+.+-++.|-=-|+
T Consensus       127 ~~~~SleD~e~kln~ai-Er~alLE~El~EKe~l~~~~QRLkdE  169 (189)
T 2v71_A          127 ATIMSLEDFEQRLNQAI-ERNAFLESELDEKESLLVSVQRLKDE  169 (189)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHhhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77778888899999999 99999999998655554444433333

>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=97.66  E-value=0.00014  Score=73.29  Aligned_cols=61  Identities=26%  Similarity=0.445  Sum_probs=38.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      +..-|+|+|+.++|||+|+|.|+|... |..+.    +...+..+...|.         |  ..+.|+||+|+.+..
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~~-~~~~~~~~~~t~~~~~~~~~~~---------~--~~i~liDTpG~~~~~   92 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRKV-FHSGTAAKSITKKCEKRSSSWK---------E--TELVVVDTPGIFDTE   92 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSCC-SCC-------CCSCEEEEEEET---------T--EEEEEEECCSCC---
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCCc-CccCCCCCceeeeEEEEEEEeC---------C--ceEEEEECCCccCCC
Confidence            445689999999999999999999762 22221    2222333333331         2  468899999996543

>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=97.53  E-value=0.00011  Score=77.46  Aligned_cols=57  Identities=30%  Similarity=0.560  Sum_probs=41.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccc-cc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQV-AS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~-g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +-.+|+|+|+.++|||+|+|+|+|..  +.. ++   ++.....|+..|.           ...+.|+||+|+.
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~--~~i~s~~~~tTr~~~~gi~~~~-----------~~~i~~iDTpG~~   67 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK--ISITSRKAQTTRHRIVGIHTEG-----------AYQAIYVDTPGLH   67 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS--EEECCCCSSCCSSCEEEEEEET-----------TEEEEEESSSSCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC--ccccCCCCCcceeeEEEEEEEC-----------CeeEEEEECcCCC
Confidence            45689999999999999999999986  432 21   2222335776552           2568899999975

>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=97.51  E-value=0.00034  Score=69.80  Aligned_cols=61  Identities=20%  Similarity=0.199  Sum_probs=41.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ...-|.|+|..++|||+|+|+|++..  |.+.+ ....|+++.......       ....+.|+||+|...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~--~~~~~-~~~~t~~~~~~~~~~-------~~~~~~l~DtpG~~~   88 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN--VDVQS-YSFTTKNLYVGHFDH-------KLNKYQIIDTPGLLD   88 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC--EEEEC-C-----CEEEEEEEE-------TTEEEEEEECTTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC--CccCC-CCCcceeeeeeeeec-------CCCeEEEEECCCCcC
Confidence            34568999999999999999999876  65443 234566665543322       126789999999854

>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=97.50  E-value=0.00014  Score=76.77  Aligned_cols=58  Identities=28%  Similarity=0.478  Sum_probs=41.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccc-cc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQV-AS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~-g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ....|+|+|..++|||+|+|+|+|..  |.. .+   ++.....|++.|.           .+.+.|+||+|+..
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~--~~ivs~~~~tTr~~i~~i~~~~-----------~~~l~l~DTpG~~~   67 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVK--VAPISPRPQTTRKRLRGILTEG-----------RRQIVFVDTPGLHK   67 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC--CSCCCSSSCCCCSCEEEEEEET-----------TEEEEEEECCCCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCc--eeeecCCCCceeEEEEEEEEeC-----------CcEEEEecCccccc
Confidence            45679999999999999999999986  432 21   2233345666542           26789999999853

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=97.49  E-value=0.00026  Score=69.83  Aligned_cols=65  Identities=22%  Similarity=0.136  Sum_probs=42.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +...|+|+|..++|||+|+|+|+|...-..+ +....+|..+-......      .....+.|+||+|++..
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~------~~~~~~~l~DtpG~~~~   92 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQKRLAFA-SKTPGRTQHINYFSVGP------AAEPVAHLVDLPGYGYA   92 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCSSSSCT-TCCCCSCCCEEEEEESC------TTSCSEEEEECCCCCSS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcceee-cCCCCcccceEEEEecC------CCCCcEEEEcCCCCCcc
Confidence            3456889999999999999999987521122 22334566654433221      12356899999998654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=97.47  E-value=0.00016  Score=66.98  Aligned_cols=59  Identities=29%  Similarity=0.334  Sum_probs=35.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|.|+|+.++|||+|+|+|++..  |.......++|.....+...+     ++  ..+.++||+|...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~-----~~--~~~~l~Dt~G~~~   61 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR--SAVVADVPGVTRDLKEGVVET-----DR--GRFLLVDTGGLWS   61 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC--C-----------CCEEEEEEE-----TT--EEEEEEECGGGCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--eeeccCCCCceecceEEEEEe-----CC--ceEEEEECCCCCC
Confidence            47899999999999999999876  332222233444444333221     22  4688999999854

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=97.45  E-value=0.00037  Score=66.71  Aligned_cols=58  Identities=26%  Similarity=0.384  Sum_probs=39.8

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..-|.|+|+.++|||+|+|+|++..  +...+....+|..+..+..       +   ..+.++||+|++.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~--~~~~~~~~~~t~~~~~~~~-------~---~~~~i~Dt~G~~~   80 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK--IAFVSKTPGKTRSINFYLV-------N---SKYYFVDLPGYGY   80 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC--CSCCCSSCCCCCCEEEEEE-------T---TTEEEEECCCBSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc--cccccCCCCCccCeEEEEE-------C---CcEEEEECCCCcc
Confidence            3458899999999999999999886  3333333345555544322       1   2477999999854

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.43  E-value=0.0095  Score=61.28  Aligned_cols=21  Identities=5%  Similarity=0.068  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 005055          628 AAEARLAAAREQALSAQEEVE  648 (716)
Q Consensus       628 ~~eerl~~~~~ql~~ak~E~~  648 (716)
                      .+++.+..+.+.+...+.+..
T Consensus       122 ~~~~~l~~~~~~l~~~~~~l~  142 (256)
T 3na7_A          122 RKSEKQEDLKKEMLELEKLAL  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.42  E-value=0.00024  Score=73.48  Aligned_cols=66  Identities=20%  Similarity=0.175  Sum_probs=38.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      .-|+|+|..++|||+|+|.|+|.. .|....    +....|.|+-.....+.   .+|..+.+.|+||+|+++.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~l~liDTpG~~d~   78 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLTD-LYSPEYPGPSHRIKKTVQVEQSKVLIK---EGGVQLLLTIVDTPGFGDA   78 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSSC-C---------------CCCEEEEEEEC---C--CCEEEEEEECCCCSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCcccccCCceEEEEEEEEEe---cCCeEEEEEEEECCCcccc
Confidence            348899999999999999999874 232221    11123444433332221   2455578999999999643

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.36  E-value=0.00032  Score=72.30  Aligned_cols=65  Identities=17%  Similarity=0.231  Sum_probs=41.9

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..+-.-|.|+|..++|||+|+|.|+|..- +.+++ ..++|........       +.....+.|+||+|++..
T Consensus        36 ~~~~~~I~vvG~~g~GKSSLin~l~~~~~-~~~~~-~~~~t~~~~~~~~-------~~~~~~l~iiDTpG~~~~  100 (270)
T 1h65_A           36 DVNSLTILVMGKGGVGKSSTVNSIIGERV-VSISP-FQSEGPRPVMVSR-------SRAGFTLNIIDTPGLIEG  100 (270)
T ss_dssp             TCCEEEEEEEESTTSSHHHHHHHHHTSCC-SCCCS-SSCCCSSCEEEEE-------EETTEEEEEEECCCSEET
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHhCCCc-ccccC-CCCcceeeEEEEE-------eeCCeEEEEEECCCCCCC
Confidence            34556789999999999999999998762 12222 2233432222211       112367999999998654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.30  E-value=0.00041  Score=71.24  Aligned_cols=65  Identities=20%  Similarity=0.221  Sum_probs=41.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      .+-.-|+|+|..++|||+|+|.|+|....+ +++ ..++|...-.....+     +  ...+.|+||+|+++..
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~-~~~-~~~~t~~~~~~~~~~-----~--~~~l~liDTpG~~~~~   98 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVR-VSP-FQAEGLRPVMVSRTM-----G--GFTINIIDTPGLVEAG   98 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSC-CCS-SCC-CCCCEEEEEEE-----T--TEEEEEEECCCSEETT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcc-cCC-CCCcceeeEEEEEEE-----C--CeeEEEEECCCCCCcc
Confidence            355678999999999999999999976322 222 223333222111111     1  2578999999986543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.25  E-value=0.00046  Score=64.36  Aligned_cols=56  Identities=21%  Similarity=0.265  Sum_probs=36.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccc--ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQV--ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~--g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|+.++|||+|+|+|++..  |..  .++....+...+.         .++..+.+.++||+|..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~--~~~~~~~t~~~~~~~~~~---------~~~~~~~~~~~Dt~G~~   62 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKGT--FRESYIPTVEDTYRQVIS---------CDKSICTLQITDTTGSH   62 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCC--CCSSCCCCSCEEEEEEEE---------ETTEEEEEEEEECCSCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CCCCCCCCccccEEEEEE---------ECCEEEEEEEEECCCch
Confidence            47899999999999999999865  421  2222222221111         13445789999999964

>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=97.17  E-value=0.0009  Score=64.26  Aligned_cols=62  Identities=23%  Similarity=0.320  Sum_probs=36.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      +..-|.|+|+.++|||+|+|+|++..---.+.++ ..+|..+..+..       ++   .+.|+||+|++...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~t~~~~~~~~-------~~---~~~l~Dt~G~~~~~   83 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRKNLARTSSK-PGKTQTLNFYII-------ND---ELHFVDVPGYGFAK   83 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC--------------CCEEEEEE-------TT---TEEEEECCCBCCCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccccCCC-CCceeeEEEEEE-------CC---cEEEEECCCCCccc
Confidence            4556899999999999999999987511112222 224555443321       11   47889999986543

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.13  E-value=0.0011  Score=82.39  Aligned_cols=38  Identities=13%  Similarity=0.160  Sum_probs=24.5

Q ss_pred             CceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHH
Q 005055           52 GKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQ   90 (716)
Q Consensus        52 ~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~   90 (716)
                      |-|.|-..|-..+..-..+=+ |-|.|..|+|||.-...
T Consensus       151 Hi~aia~~ay~~m~~~~~~Q~-i~isGeSGaGKTe~~k~  188 (1184)
T 1i84_S          151 HIYAIADTAYRSMLQDREDQS-ILCTGESGAGKTENTKK  188 (1184)
T ss_dssp             CHHHHHHHHHHHHHHHTCCEE-EECCCSTTSSTTHHHHH
T ss_pred             cHhhhHHHHHHHHHhcCCCcE-EEEecCCCCCccHHHHH
Confidence            445566666666655445554 45889999999954433

>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=97.12  E-value=0.00026  Score=76.28  Aligned_cols=26  Identities=27%  Similarity=0.597  Sum_probs=22.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+-.|+|+|.+++|||+|+|.|.|..
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~   58 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKD   58 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            33489999999999999999999965

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=97.10  E-value=0.0006  Score=70.31  Aligned_cols=62  Identities=23%  Similarity=0.206  Sum_probs=41.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +...|+|+|+.++|||+|+|.|.|..  |.+|+.. ..|.........+     ++  ..+.++||+|+.+.
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~--~~~~~~~-~~t~~~~~~~~~~-----~~--~~~~l~DtpG~~~~   63 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLR--QHVGNWP-GVTVEKKEGIMEY-----RE--KEFLVVDLPGIYSL   63 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTC--EEEEECT-TSSCEEEEEEEEE-----TT--EEEEEEECCCCSCC
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCC--cccCCCC-CeEEEeeEEEEEE-----CC--ceEEEEeCCCcccc
Confidence            34578999999999999999999986  5655431 2233222221111     12  45889999998654

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.08  E-value=0.00048  Score=64.06  Aligned_cols=59  Identities=19%  Similarity=0.302  Sum_probs=38.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|+.++|||+|+|+|++..  |...   ...|.|.-.....+.   .++..+.+.++||+|..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~~~D~~G~~   63 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND--FAEN---KEPTIGAAFLTQRVT---INEHTVKFEIWDTAGQE   63 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC--CCTT---CCCCSSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCCC---CCCccceeEEEEEEE---ECCEEEEEEEEECCCCh
Confidence            48899999999999999999765  4321   123444333222221   13445789999999964

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.07  E-value=0.11  Score=53.34  Aligned_cols=9  Identities=0%  Similarity=-0.034  Sum_probs=3.2

Q ss_pred             HHhhcHHHH
Q 005055          518 LKYRSIEDN  526 (716)
Q Consensus       518 ~k~~s~e~e  526 (716)
                      ..+..++++
T Consensus        32 ~el~~le~~   40 (256)
T 3na7_A           32 KDLDKALND   40 (256)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=97.07  E-value=0.00044  Score=65.19  Aligned_cols=62  Identities=23%  Similarity=0.325  Sum_probs=40.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|+.++|||+|+|+|++..  |...   ...|.|+-.....+.   .++..+.+.++||+|..
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   67 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTNK--FDTQ---LFHTIGVEFLNKDLE---VDGHFVTMQIWDTAGQE   67 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSC--CCC-------CCSEEEEEEEEE---ETTEEEEEEEEECCCCG
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCC--CCCC---CCCceeeeEEEEEEE---ECCEEEEEEEEeCCCch
Confidence            34568999999999999999999765  4321   123445443332221   13555789999999953

>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=97.07  E-value=0.00057  Score=70.27  Aligned_cols=60  Identities=17%  Similarity=0.067  Sum_probs=40.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      .|+|+|..++|||+|+|.|.|..  +.+++.. ..|.........+     +|  ..+.|+||+|+.+..
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~~--~~v~~~p-g~Tv~~~~~~~~~-----~~--~~~~lvDtpG~~~~~   62 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNAN--QRVGNWP-GVTVEKKTGEFLL-----GE--HLIEITDLPGVYSLV   62 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTS--EEEEECT-TSSSEEEEEEEEE-----TT--EEEEEEECCCCSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--CCccCCC-CceEEEEEEEEEE-----CC--eEEEEEeCCCccccc
Confidence            58899999999999999999986  6665431 2332222221111     12  478999999986543

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.06  E-value=0.0014  Score=81.52  Aligned_cols=16  Identities=25%  Similarity=0.451  Sum_probs=11.9

Q ss_pred             ceeEEEEeCCCCcccc
Q 005055          127 EYNLLLLDSEGIDAYD  142 (716)
Q Consensus       127 ~~~vvlLDTEGl~~~~  142 (716)
                      ...|=+||.-||..++
T Consensus       457 ~~~IgvLDi~GFE~f~  472 (1184)
T 1i84_S          457 ASFLGILDIAGFEIFE  472 (1184)
T ss_dssp             CEEEEEEECCCCCCCS
T ss_pred             cceEEEeecCCcCCCC
Confidence            4678888998886554

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.05  E-value=0.00062  Score=64.31  Aligned_cols=63  Identities=22%  Similarity=0.316  Sum_probs=41.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|+|+|..++|||+|+|+|++..  |.....  ..|.|+-.....+.   .++..+.+.++||+|..
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~~--~~~~~~--~~t~~~~~~~~~~~---~~~~~~~~~~~Dt~G~~   71 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDGA--FLAGTF--ISTVGIDFRNKVLD---VDGVKVKLQMWDTAGQE   71 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC--CCCCCC--CCCCSCEEEEEEEE---ETTEEEEEEEEECCCC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC--CCCCCc--CCceeeEEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            44568999999999999999999876  432221  23444443332221   24556789999999964

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=97.05  E-value=0.00055  Score=63.81  Aligned_cols=60  Identities=22%  Similarity=0.289  Sum_probs=39.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|.|+|+.++|||+|+|+|++..  |...   ...|.|.-.....+.   .++..+.+.++||+|..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~~~Dt~G~~   66 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS--FDPN---INPTIGASFMTKTVQ---YQNELHKFLIWDTAGLE   66 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC--CCTT---CCCCCSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC--CCCC---CCCceeEEEEEEEEE---ECCeEEEEEEEcCCCch
Confidence            458999999999999999999876  3211   123444433322221   12445789999999974

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=97.04  E-value=0.00072  Score=69.56  Aligned_cols=62  Identities=23%  Similarity=0.170  Sum_probs=41.6

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      -..|+|+|..++|||+|+|+|.|..  |.+++.. ..|.........       ...+.+.|+||+|..+..
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~~--~~~~~~p-g~tv~~~~~~~~-------~~~~~~~l~DtpG~~~~~   66 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGTK--QYVANWP-GVTVEKKEGVFT-------YKGYTINLIDLPGTYSLG   66 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTTC--EEEEECT-TSCCEEEEEEEE-------ETTEEEEEEECCCCSSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCC--CcccCCC-CceEEEEEEEEE-------ECCeEEEEEECCCcCccC
Confidence            3468999999999999999999976  6555431 233332222111       112678999999986543

>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=97.03  E-value=0.001  Score=68.94  Aligned_cols=61  Identities=20%  Similarity=0.168  Sum_probs=40.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      ..|+|+|..++|||+|+|+|.|..  |.+++.. ..|.........+     ++  ..+.|+||+|..+..
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g~~--~~v~~~~-g~t~~~~~~~~~~-----~~--~~~~liDtpG~~~~~   64 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTGSR--QRVGNWA-GVTVERKEGQFST-----TD--HQVTLVDLPGTYSLT   64 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTC--EEEEECT-TSSSEEEEEEEEC-----SS--CEEEEEECCCCSCSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC--cccCCCC-CeeEEEEEEEEEe-----CC--CceEEEECcCCCccc
Confidence            358999999999999999999986  6666432 2232221111111     12  468889999987654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=97.02  E-value=0.0011  Score=62.20  Aligned_cols=62  Identities=18%  Similarity=0.269  Sum_probs=34.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|+|+|+.++|||+|+|+|.|..  |.....    |.|.=.....+   ..++..+.+.++||.|...
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~--~~~~~~----~~~~~~~~~~~---~~~~~~~~~~~~D~~g~~~   64 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQ--ERDLHE----QLGEDVYERTL---TVDGEDTTLVVVDTWEAEK   64 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-------CC----CSSSSEEEEEE---EETTEEEEEEEECCC----
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCC--CccccC----ccccceeEEEE---EECCEEEEEEEEecCCCCc
Confidence            34568999999999999999999875  432211    12211111111   1134557899999999753

>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=97.02  E-value=0.00072  Score=62.60  Aligned_cols=59  Identities=27%  Similarity=0.285  Sum_probs=36.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|.|+|+.++|||+|+|+|++..  |..  .. +.|.|.-... .+   ..++..+.+.|+||+|..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~--~~~--~~-~~t~~~~~~~-~~---~~~~~~~~~~l~D~~G~~   63 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE--FVE--DY-EPTKADSYRK-KV---VLDGEEVQIDILDTAGQE   63 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC--CCS--CC-CTTCCEEEEE-EE---EETTEEEEEEEEECCC--
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc--cCC--CC-CCCcceEEEE-EE---EECCEEEEEEEEECCCcc
Confidence            348899999999999999999765  421  11 1233322211 11   123455789999999954

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=97.01  E-value=0.00063  Score=63.50  Aligned_cols=61  Identities=21%  Similarity=0.263  Sum_probs=39.0

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|.|+|+.++|||+|+|+|++..  |....   ..|.|.-.....+   ..++..+.+.++||+|..
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~--~~~~~---~~t~~~~~~~~~~---~~~~~~~~l~i~Dt~G~~   66 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENK--FNDKH---ITTLGASFLTKKL---NIGGKRVNLAIWDTAGQE   66 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC--CCSSC---CCCCSCEEEEEEE---ESSSCEEEEEEEECCCC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC--CCcCC---CCccceEEEEEEE---EECCEEEEEEEEECCCcH
Confidence            3458999999999999999999765  32211   1233322211111   124556789999999964

>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=97.01  E-value=0.00078  Score=64.04  Aligned_cols=58  Identities=26%  Similarity=0.301  Sum_probs=36.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|+.++|||+|+|+|++..  |.-  ...+.| +...... +   ..++..+.+.|+||+|..
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~--~~~--~~~~t~-~~~~~~~-~---~~~~~~~~~~i~Dt~G~~   63 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH--FVD--EYDPTI-EDSYRKQ-V---VIDGETCLLDILDTAGQE   63 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS--CCC--CCCTTC-CEEEEEE-E---EETTEEEEEEEEECCCC-
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC--CCC--CCCCCc-hheEEEE-E---EECCcEEEEEEEECCCcH
Confidence            48899999999999999999765  321  111222 2211111 1   123555778899999964

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=97.00  E-value=0.00044  Score=64.36  Aligned_cols=60  Identities=20%  Similarity=0.292  Sum_probs=37.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.++||+|..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   65 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI--FTKDY---KKTIGVDFLERQIQ---VNDEDVRLMLWDTAGQE   65 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC--CCCCS---SCCCSSSEEEEEEE---ETTEEEEEEEECCTTGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC--CCCCC---CCceEEEEEEEEEE---ECCEEEEEEEEcCCCcH
Confidence            347899999999999999999765  43211   22333211111111   13445789999999964

>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=97.00  E-value=0.00085  Score=62.05  Aligned_cols=58  Identities=26%  Similarity=0.329  Sum_probs=37.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|+|+|+.++|||+|+|+|++..  |.-  ...+ |.|..... .+   ..++..+.+.|+||+|..
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~--~~~--~~~~-~~~~~~~~-~~---~~~~~~~~~~l~D~~G~~   62 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT--FIE--KYDP-TIEDFYRK-EI---EVDSSPSVLEILDTAGTE   62 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC--CCS--CCCT-TCCEEEEE-EE---EETTEEEEEEEEECCCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--Ccc--cCCC-CcceeEEE-EE---EECCEEEEEEEEECCCch
Confidence            48999999999999999999765  321  1122 33322211 11   123455778999999953

>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=96.99  E-value=0.00096  Score=64.69  Aligned_cols=64  Identities=19%  Similarity=0.288  Sum_probs=42.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+..-|+|+|..++|||+|+|+|++..  |...   ...|.|+-.....+.   .++..+.+.|+||+|...
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~~   69 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNKK--FSNQ---YKATIGADFLTKEVM---VDDRLVTMQIWDTAGQER   69 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSC--CCSS---CCCCCSEEEEEEEEE---SSSCEEEEEEEEECSSGG
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCC--CCCC---CCCcccceEEEEEEE---ECCEEEEEEEEeCCCcHH
Confidence            456679999999999999999999875  4321   123444433322221   234567899999999643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.99  E-value=0.00084  Score=63.20  Aligned_cols=63  Identities=19%  Similarity=0.291  Sum_probs=40.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..=|+|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.++||+|..
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   69 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNT--FSGSY---ITTIGVDFKIRTVE---INGEKVKLQIWDTAGQE   69 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC-----CC---TTTBSEEEEEEEEE---ETTEEEEEEEEEETTGG
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCC--CCCcc---CCCceeEEEEEEEE---ECCEEEEEEEEcCCCch
Confidence            455668999999999999999999876  43211   22333322222221   13455789999999964

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.99  E-value=0.014  Score=71.64  Aligned_cols=59  Identities=15%  Similarity=0.164  Sum_probs=30.8

Q ss_pred             HhHHHHHHHHHHHHH---HHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH
Q 005055          546 KRYDDAINDKKKLAD---DYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV  604 (716)
Q Consensus       546 k~lee~i~dlk~~~e---~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~  604 (716)
                      ..++..+..|++..+   ....++..++.++.++++++..+.++++.+.+|+.+++.+++++
T Consensus       956 ~~~~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~ 1017 (1080)
T 2dfs_A          956 ITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKY 1017 (1080)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555533332   33444455555556666666666666666665555555554444

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=96.98  E-value=0.00085  Score=63.16  Aligned_cols=61  Identities=23%  Similarity=0.173  Sum_probs=39.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|+|+|..++|||+|+|+|++..  |.-  .. +.|.|.-... .+   ..++..+.+.|+||.|..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~--~~~--~~-~~t~~~~~~~-~~---~~~~~~~~~~~~Dt~G~~   68 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY--FVS--DY-DPTIEDSYTK-IC---SVDGIPARLDILDTAGQE   68 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS--CCS--SC-CTTCCEEEEE-EE---EETTEEEEEEEEECCCTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc--Ccc--cc-CCCcCceEEE-EE---EECCEEEEEEEEECCCch
Confidence            34568999999999999999999874  321  11 2233332221 11   123455788999999964

>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=96.98  E-value=0.00054  Score=64.40  Aligned_cols=60  Identities=22%  Similarity=0.305  Sum_probs=39.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|.|+|+.++|||+|+|+|++..  |...   ...|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~~~Dt~G~~   74 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS--FDNT---YQATIGIDFLSKTMY---LEDRTVRLQLWDTAGQE   74 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC--CCSS---CCCCCSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC--CCCC---CCCceeeEEEEEEEE---ECCeEEEEEEEECCCcH
Confidence            458899999999999999999765  4321   123444433222221   13455789999999964

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.97  E-value=0.00069  Score=64.83  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=21.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .=|+|+|+.++|||+|+|+|++..
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            348899999999999999999875

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=96.95  E-value=0.00065  Score=65.22  Aligned_cols=64  Identities=19%  Similarity=0.243  Sum_probs=35.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|+|+|+.++|||+|+|+|.|....|. +  ....|.|+-.....+.....++..+.+.++||.|..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~~~~~~-~--~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   67 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKTKKSDL-G--MQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGRE   67 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC--------------CSEEEEEEEC---------CEEEEEEECSHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCccC-C--CcceeccEEeEEeeeccccCCCCceEEEEEecCCCH
Confidence            378999999999999999998633342 1  123466665433322211113445788999999964

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=96.94  E-value=0.00098  Score=61.43  Aligned_cols=58  Identities=28%  Similarity=0.324  Sum_probs=36.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|+.++|||+|+|+|++..  |.-  ...+ |.|... ...+   ..++..+.+.++||+|..
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~--~~~--~~~~-~~~~~~-~~~~---~~~~~~~~~~~~D~~G~~   62 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH--FVD--ECDP-TIEDSY-RKQV---VIDGETCLLDILDTAGQE   62 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS--CCS--CCCT-TCCEEE-EEEE---EETTEEEEEEEEECCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc--Ccc--ccCC-ccceEE-EEEE---EECCEEEEEEEEECCCch
Confidence            37899999999999999999764  321  1112 222211 1111   113455788999999964

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=96.94  E-value=0.0057  Score=67.31  Aligned_cols=94  Identities=15%  Similarity=0.122  Sum_probs=66.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHH----HHHHHHhhhHHHHHHhhHHhHHHHHHHHH-HHHHHHHHH---HHHHHH
Q 005055          539 RYKSEYLKRYDDAINDKKKLADDYTSRI----NNLQGENISLREKSSSLSKTVDSLKNEIS-DWKRKYDQV---LTKQKA  610 (716)
Q Consensus       539 ~~~~~~~k~lee~i~dlk~~~e~~~~~~----~~l~~k~~~le~~~~~~~~~le~~k~e~~-e~~r~y~~~---i~~~k~  610 (716)
                      .++-.+++++...|++|+.+++++..-.    +.++..+..|..+..... +.++...|++ |++|+|+.+   |+++.+
T Consensus        53 glLdkqErDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~-dNdNtynE~S~ELRRrIqyLKekVdnQls  131 (562)
T 3ghg_A           53 GLIDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSAN-NRDNTYNRVSEDLRSRIEVLKRKVIEKVQ  131 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHH-HHHHHHHHTTHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhh-ccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445556778888888888888883333    556777777777777666 7888888877 888888877   777766


Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHH
Q 005055          611 MEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       611 ~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      ....|++.|+++..+++.||--+
T Consensus       132 nIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          132 HIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777777766666666433

>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=96.94  E-value=0.00083  Score=62.43  Aligned_cols=60  Identities=20%  Similarity=0.287  Sum_probs=38.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|+|+|+.++|||+|+|+|++..  |.-   ....|.|+-.....+.   .++..+.+.++||+|..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~--~~~---~~~~~~~~~~~~~~~~---~~~~~~~~~~~D~~G~~   66 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ--FHE---FQESTIGAAFLTQTVC---LDDTTVKFEIWDTAGQE   66 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC--CCT---TCCCCSSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC--CCC---CCCCccceEEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            458999999999999999999764  321   1123444332222221   13445789999999964

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.91  E-value=0.001  Score=62.58  Aligned_cols=62  Identities=18%  Similarity=0.329  Sum_probs=37.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      +...|+|+|+.++|||+|+|+|++..  |..... ...|..+-.+...+     ++  ..+.++||+|....
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~--~~~~~~-~~~~~~~~~~~~~~-----~~--~~~~l~Dt~G~~~~   68 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK--VTEQEA-GGITQHIGAYQVTV-----ND--KKITFLDTPGHEAF   68 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC--SSCSSC-CSSSTTCCCCEEEE-----TT--EEEEESCCCSSSSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc--cccCCC-CceeEeeeEEEEEe-----CC--ceEEEEECCCCHHH
Confidence            44468899999999999999999865  443221 11111111111111     22  45778999997543

>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=96.91  E-value=0.00047  Score=72.21  Aligned_cols=26  Identities=31%  Similarity=0.578  Sum_probs=23.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ++..|+|+|.+++|||+|+|.|+|..
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            45679999999999999999999975

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=96.91  E-value=0.0015  Score=63.12  Aligned_cols=62  Identities=26%  Similarity=0.270  Sum_probs=40.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|.|+|+.++|||+|+|+|++..  |..  .. +.|.|.-.. ..+   ..++..+.+.|+||+|..
T Consensus        12 ~~~~ki~v~G~~~~GKSsli~~l~~~~--~~~--~~-~~t~~~~~~-~~~---~~~~~~~~~~l~Dt~G~~   73 (206)
T 2bov_A           12 LALHKVIMVGSGGVGKSALTLQFMYDE--FVE--DY-EPTKADSYR-KKV---VLDGEEVQIDILDTAGQE   73 (206)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSC--CCT--TC-CTTCCEEEE-EEE---EETTEEEEEEEEECCCTT
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCC--CCC--CC-CCccceEEE-EEE---EECCEEEEEEEEcCCChh
Confidence            456678999999999999999999765  421  11 223332221 111   113455789999999964

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=96.91  E-value=0.00098  Score=63.47  Aligned_cols=59  Identities=29%  Similarity=0.461  Sum_probs=35.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|+|+|+.++|||+|+|+|.|..  |..-+...+.|.+...-.  +   ..+|  ..+.++||.|+.
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~--~~~~~~~~~~t~~~~~~~--~---~~~~--~~~~l~Dt~G~~   63 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE--AAIVTDIAGTTRDVLREH--I---HIDG--MPLHIIDTAGLR   63 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC--CSCCCSSTTCCCSCEEEE--E---EETT--EEEEEEECCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC--cceeeCCCCceeceeeEE--E---EECC--eEEEEEECCCcc
Confidence            358899999999999999999875  321111112232221111  0   0123  457899999974

>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=96.90  E-value=0.0009  Score=64.36  Aligned_cols=60  Identities=18%  Similarity=0.269  Sum_probs=39.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|.|+|+.++|||+|+|+|++..  |...   ...|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   85 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE--FSHD---SRTTIGVEFSTRTVM---LGTAAVKAQIWDTAGLE   85 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC--CCSS---CCCCSSEEEEEEEEE---ETTEEEEEEEEEESCCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC--CCCC---CCCccceeEEEEEEE---ECCEEEEEEEEeCCCch
Confidence            358999999999999999999865  4321   123444332222211   12445789999999974

>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=96.90  E-value=0.0007  Score=63.65  Aligned_cols=62  Identities=24%  Similarity=0.348  Sum_probs=39.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|.|+|..++|||+|+|+|++..  |..   ..+.|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~---~~~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   75 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK--FMA---DCPHTIGVEFGTRIIE---VSGQKIKLQIWDTAGQE   75 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC--CCS---SCTTSCCCCEEEEEEE---ETTEEEEEEEEECTTGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC--CCC---CCCCccceEEEEEEEE---ECCeEEEEEEEECCCCh
Confidence            34568999999999999999999765  321   1122333221111111   13445789999999953

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=96.89  E-value=0.0011  Score=61.47  Aligned_cols=58  Identities=22%  Similarity=0.192  Sum_probs=38.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|+|+|..++|||+|+|+|++..  |.-.   ...|.|.-.. ..+   ..++..+.+.|+||+|..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~--~~~~---~~~t~~~~~~-~~~---~~~~~~~~~~l~D~~G~~   62 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI--FVEK---YDPTIEDSYR-KQV---EVDCQQCMLEILDTAGTE   62 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC--CCCS---CCCCSEEEEE-EEE---ESSSCEEEEEEEEECSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CCCC---CCCCccceEE-EEE---EECCEEEEEEEEECCChH
Confidence            48899999999999999999754  4211   1224443322 111   124556789999999964

>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=96.89  E-value=0.00069  Score=63.12  Aligned_cols=56  Identities=21%  Similarity=0.336  Sum_probs=36.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccce----EEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKG----LWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkG----IWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|+|+|+.++|||+|+|+|++..  |....   ..|.|    ++.+.       .++..+.+.|+||+|..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~--~~~~~---~~~~~~~~~~~~~~-------~~~~~~~~~l~D~~G~~   63 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK--FNPSF---ITTIGIDFKIKTVD-------INGKKVKLQIWDTAGQE   63 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC--CCC----------CCEEEEEEE-------SSSCEEEEEEECCTTGG
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC--CCCCC---CCccceeEEEEEEE-------ECCEEEEEEEEeCCCCh
Confidence            358999999999999999999765  42211   11222    22221       13556789999999964

>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=96.87  E-value=0.0011  Score=64.20  Aligned_cols=62  Identities=19%  Similarity=0.238  Sum_probs=40.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||+|..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   68 (203)
T 1zbd_A            7 YMFKILIIGNSSVGKTSFLFRYADDS--FTPAF---VSTVGIDFKVKTIY---RNDKRIKLQIWDTAGLE   68 (203)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCC--CCSCC---CCCCSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC--CCCCc---CCccceeEEEEEEE---ECCeEEEEEEEECCCch
Confidence            34568999999999999999999876  43211   22334332222221   13455789999999974

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=96.86  E-value=0.0061  Score=50.99  Aligned_cols=58  Identities=12%  Similarity=0.239  Sum_probs=53.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHH-----HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH
Q 005055          547 RYDDAINDKKKLADDYTSRI-----NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV  604 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~-----~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~  604 (716)
                      ++...|.+++.+||.++.++     +||+.|+.++........+.|.+++.|++|++|.++.+
T Consensus         6 DL~~il~eiRaQYE~ia~knr~EaE~~y~~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L   68 (77)
T 3trt_A            6 DCTAAMRDVRQQYESVAAKNLQEAEEWYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSL   68 (77)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            46778999999999999888     78999999999999999999999999999999998775

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=96.85  E-value=0.00082  Score=62.74  Aligned_cols=61  Identities=18%  Similarity=0.128  Sum_probs=34.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .=|.|+|+.++|||+|+|+|.+..  |...+.. +.|......  .+.   .++..+.+.++||.|.+.
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~--~~~~~~~-~~~~~~~~~--~~~---~~~~~~~~~i~D~~g~~~   63 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQ--GDHAHEM-ENSEDTYER--RIM---VDKEEVTLIVYDIWEQGD   63 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC---------------CEEEE--EEE---ETTEEEEEEEECCCCC--
T ss_pred             EEEEEECCCCCCHHHHHHHHHhcc--CcccccC-CCcCCeeeE--EEE---ECCeEEEEEEEECCCccc
Confidence            348899999999999999999765  2211110 111111111  111   135567899999999753

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.85  E-value=0.0011  Score=63.78  Aligned_cols=57  Identities=21%  Similarity=0.242  Sum_probs=36.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccc--ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQV--ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~--g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|+|+|..++|||+|+|+|++..  |..  .++....+.-.+         ..++..+.+.|+||+|..
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~~--~~~~~~~t~~~~~~~~~---------~~~~~~~~~~l~Dt~G~~   67 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKGT--FRDTYIPTIEDTYRQVI---------SCDKSVCTLQITDTTGSH   67 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC--CCCTTSCCCCEEEEEEE---------EETTEEEEEEEEECCGGG
T ss_pred             eEEEEECCCCCcHHHHHHHHHcCC--CCCcccCccccceeEEE---------EECCEEEEEEEEeCCChH
Confidence            458999999999999999999765  321  122211111111         113445789999999964

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=96.84  E-value=0.001  Score=65.37  Aligned_cols=62  Identities=16%  Similarity=0.231  Sum_probs=39.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccc--ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQV--ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~--g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..=|+|+|..++|||+|+|+|++..  |..  .++....+..+...       ..++..+.+.|+||.|...
T Consensus        10 ~~~ki~vvG~~~~GKSsli~~l~~~~--~~~~~~~t~~~~~~~~~~~-------~~~~~~~~~~l~Dt~G~~~   73 (218)
T 4djt_A           10 LTYKICLIGDGGVGKTTYINRVLDGR--FEKNYNATVGAVNHPVTFL-------DDQGNVIKFNVWDTAGQEK   73 (218)
T ss_dssp             CEEEEEEECCTTSSHHHHHCBCTTCS--TTCEEETTTTEEEEEEEEE-------BTTSCEEEEEEEEECSGGG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC--CCCCCCCccceeeEEEEEE-------eCCCcEEEEEEEecCCchh
Confidence            34458899999999999999999765  321  22222222222221       1234447899999999643

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=96.83  E-value=0.0029  Score=67.98  Aligned_cols=62  Identities=23%  Similarity=0.260  Sum_probs=43.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+..+|+|+|+.++|||+|+|.|.|..  +.+++. ...|+++-+...+.     +  ...+.++||+|+..
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~--~~~~~~-~~~t~~~~~~~~~~-----~--~~~~~l~Dt~G~~~  226 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAK--PEIASY-PFTTRGINVGQFED-----G--YFRYQIIDTPGLLD  226 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSC--CEEECC-TTCSSCEEEEEEEE-----T--TEEEEEEECTTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC--CccCCC-CCeeeceeEEEEEe-----c--CceEEEEeCCCccc
Confidence            455689999999999999999999876  444432 23455554332221     1  25789999999853

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.82  E-value=0.0004  Score=74.75  Aligned_cols=26  Identities=23%  Similarity=0.158  Sum_probs=23.4

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +.+..+|+|+|++++|||||+|.|+|
T Consensus        71 ~~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           71 KPLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccCceEEEEEcCCCCCHHHHHHHHHH
Confidence            34588999999999999999999986

>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=96.81  E-value=0.00088  Score=65.30  Aligned_cols=63  Identities=22%  Similarity=0.327  Sum_probs=39.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|+|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .+|..+.+.|+||+|...
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~~   81 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVEDK--FNPSF---ITTIGIDFKIKTVD---INGKKVKLQLWDTAGQER   81 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHCC--CCCSS---SCCCSCCEEEEEEE---ETTEEEEEEEECCTTGGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC--CCccc---CCcccceEEEEEEE---ECCEEEEEEEEeCCCcHH
Confidence            34568999999999999999999765  43211   11222211111111   134457899999999643

>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=96.81  E-value=0.00084  Score=73.62  Aligned_cols=64  Identities=17%  Similarity=0.206  Sum_probs=35.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeecccccccc------C------CC-CceeEEEEeCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTA------L------DG-TEYNLLLLDSEG  137 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~------~------~g-~~~~vvlLDTEG  137 (716)
                      |+|+|.+++|||+|+|+|.|..  +.+++   ++...+.|+..+..+.+...      |      ++ ..+.+.|+||+|
T Consensus         3 I~ivG~pnvGKSTL~n~L~~~~--~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            3 IGVVGKPNVGKSTFFSAATLVD--VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             EEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             EEEECCCCCCHHHHHHHHHCCC--CcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            7899999999999999999876  33333   23334678866542222100      0      11 136799999999


Q ss_pred             Cc
Q 005055          138 ID  139 (716)
Q Consensus       138 l~  139 (716)
                      +.
T Consensus        81 ~~   82 (397)
T 1wxq_A           81 LV   82 (397)
T ss_dssp             --
T ss_pred             cc
Confidence            84

>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=96.81  E-value=0.001  Score=63.20  Aligned_cols=62  Identities=27%  Similarity=0.344  Sum_probs=40.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||+|..
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   70 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEKK--FKDDS---NHTIGVEFGSKIIN---VGGKYVKLQIWDTAGQE   70 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSS--CCTTC---CCCSEEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC--CCCCC---CCccceEEEEEEEE---ECCEEEEEEEEeCCCcH
Confidence            34568999999999999999999765  43221   12334322221111   13445789999999964

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=96.80  E-value=0.0012  Score=63.69  Aligned_cols=61  Identities=20%  Similarity=0.212  Sum_probs=40.0

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -.=|+|+|+.++|||+|+|+|++..  |...   ...|.|+-.....+..   ++..+.+.|+||+|..
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~--~~~~---~~~~~~~~~~~~~~~~---~~~~~~~~i~Dt~G~~   83 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH--FDHN---ISPTIGASFMTKTVPC---GNELHKFLIWDTAGQE   83 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC--CCTT---CCCCSSEEEEEEEEEC---SSSEEEEEEEEECCSG
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC--CCCC---cCCCcceeEEEEEEEe---CCEEEEEEEEcCCCch
Confidence            4458999999999999999999875  4211   1224443332222211   2455789999999964

>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=96.80  E-value=0.0014  Score=62.08  Aligned_cols=62  Identities=26%  Similarity=0.342  Sum_probs=39.7

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..-|+|+|..++|||+|+|+|++..  |.-  .. +.|.|.-.... +   ..++..+.+.|+||.|....
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~--~~~--~~-~~t~~~~~~~~-~---~~~~~~~~~~l~Dt~G~~~~   67 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ--FVD--SY-DPTIENTFTKL-I---TVNGQEYHLQLVDTAGQDEY   67 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS--CCS--CC-CTTCCEEEEEE-E---EETTEEEEEEEEECCCCCTT
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC--CCC--CC-CCCccccEEEE-E---EECCEEEEEEEEeCCCchhh
Confidence            4468899999999999999999654  321  11 12333322111 1   12455678899999997543

>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=96.80  E-value=0.0019  Score=67.48  Aligned_cols=58  Identities=26%  Similarity=0.277  Sum_probs=33.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..|+|+|.+++|||+|+|.|+|.. .+.+++.. .+|+..- |.. +      +  ..+.|+||+|+...
T Consensus       121 ~~v~~vG~~nvGKSsliN~l~~~~-~~~~~~~~-g~T~~~~-~~~-~------~--~~~~l~DtpG~~~~  178 (282)
T 1puj_A          121 IRALIIGIPNVGKSTLINRLAKKN-IAKTGDRP-GITTSQQ-WVK-V------G--KELELLDTPGILWP  178 (282)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC-CC-------------C-CEE-E------T--TTEEEEECCCCCCS
T ss_pred             ceEEEEecCCCchHHHHHHHhcCc-eeecCCCC-CeeeeeE-EEE-e------C--CCEEEEECcCcCCC
Confidence            358899999999999999999875 24444331 2454431 211 1      1  14789999999644

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.00096  Score=72.60  Aligned_cols=56  Identities=29%  Similarity=0.408  Sum_probs=40.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      -++-|+|+|.+.+|||||+|.|.|..  -.+++   ++.-+..|+.-|.         |  ..+.|+||+|+
T Consensus        71 g~a~V~ivG~PNvGKSTL~n~Lt~~~--~~v~~~pftT~~~~~g~~~~~---------~--~~i~l~D~pGl  129 (376)
T 4a9a_A           71 GVASVGFVGFPSVGKSTLLSKLTGTE--SEAAEYEFTTLVTVPGVIRYK---------G--AKIQMLDLPGI  129 (376)
T ss_dssp             SSEEEEEECCCCHHHHHHHHHHHSBC--CCGGGTCSSCCCEEEEEEEET---------T--EEEEEEECGGG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCC--CcccCCCCceeeeeeEEEEeC---------C--cEEEEEeCCCc
Confidence            35679999999999999999999865  22222   2223356776542         2  56899999998

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.79  E-value=0.14  Score=68.61  Aligned_cols=75  Identities=11%  Similarity=0.164  Sum_probs=55.6

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEF  690 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~  690 (716)
                      ++.+++.++.++..++++|+++++++...++..+.-+.+|+.++ ..|..|+.++..-++-++-++.==.+|..|-
T Consensus      2012 kr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~-~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek 2086 (3245)
T 3vkg_A         2012 LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLI-RETEQIKTESSKVKNKVDRSIALLDNLNSER 2086 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence            44566667777778888888888888888888899999999999 6788888877766666666655555555443

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.77  E-value=0.021  Score=70.10  Aligned_cols=68  Identities=13%  Similarity=0.174  Sum_probs=35.5

Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          582 SLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEE  649 (716)
Q Consensus       582 ~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~  649 (716)
                      .+...+.+++.++.+.+..|+.+..+.+..++..+....+|+.+++.++...+.|+.|++...+.+.+
T Consensus       981 ~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~~~~~~ 1048 (1080)
T 2dfs_A          981 NATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHD 1048 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555544444444444455555555555555555555555544443

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=96.77  E-value=0.0013  Score=61.95  Aligned_cols=64  Identities=14%  Similarity=0.209  Sum_probs=37.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.  ..++..+.+.|+||+|..
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~--~~~~~~~~~~l~Dt~G~~   69 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVNDK--YSQQY---KATIGADFLTKEVT--VDGDKVATMQVWDTAGQE   69 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSC--CCTTC------CCCSCEEEEEC--CSSSCCEEEEEECCC---
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCc--CCccc---CCccceEEEEEEEE--EcCCcEEEEEEEECCCCh
Confidence            355678999999999999999999865  33211   12333222111111  112445789999999954

>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=96.77  E-value=0.0013  Score=63.00  Aligned_cols=61  Identities=20%  Similarity=0.187  Sum_probs=38.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||+|...
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~~   83 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS--FTPAF---VSTVGIDFKVKTVY---RHDKRIKLQIWDTAGQER   83 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC--CCCSC---CCCCCCEEEEEEEE---ETTEEEEEEEEECCSCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC--CCCCc---CCceeEEEEEEEEE---ECCeEEEEEEEeCCCcHH
Confidence            348999999999999999999875  43211   12333322211111   134457899999999643

>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=96.76  E-value=0.0013  Score=62.90  Aligned_cols=61  Identities=21%  Similarity=0.322  Sum_probs=40.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -.-|.|+|+.++|||+|+|+|++..  |...   ...|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   75 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDDT--FDPE---LAATIGVDFKVKTIS---VDGNKAKLAIWDTAGQE   75 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC--CCTT---CCCCCSEEEEEEEEE---ETTEEEEEEEEEECSSG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC--CCcc---CCCccceEEEEEEEE---ECCeEEEEEEEeCCCch
Confidence            3468999999999999999999865  4321   122444333222221   13445789999999964

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=96.76  E-value=0.0017  Score=61.40  Aligned_cols=60  Identities=27%  Similarity=0.293  Sum_probs=38.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..=|.|+|+.++|||+|+|+|++..  |..  .. +.|.|.-.. ..+   ..++..+.+.|+||+|..
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~--~~~--~~-~~t~~~~~~-~~~---~~~~~~~~~~l~Dt~G~~   77 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE--FVE--DY-EPTKADSYR-KKV---VLDGEEVQIDILDTAGQE   77 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC--CCC--SC-CTTCCEEEE-EEE---EETTEEEEEEEEECCCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC--CCC--cC-CCccceEEE-EEE---EECCEEEEEEEEECCCCc
Confidence            3458899999999999999999765  422  11 123332221 111   113455789999999954

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=96.76  E-value=0.0066  Score=57.79  Aligned_cols=68  Identities=13%  Similarity=0.030  Sum_probs=44.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccc-----cCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVA-----STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g-----~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|..++|||+|+|.|.|....-..+     .+....|.|+-.....+.  ..++..+.+.++||.|..
T Consensus        13 ~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~~~~i~Dt~G~~   85 (198)
T 3t1o_A           13 INFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIG--EVKGFKTRFHLYTVPGQV   85 (198)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCC--CSSSCEEEEEEEECCSCC
T ss_pred             cccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccc--cccCCceEEEEEeCCChH
Confidence            44568999999999999999888753211100     011234777766654331  124567889999999964

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=96.75  E-value=0.0015  Score=62.51  Aligned_cols=58  Identities=28%  Similarity=0.314  Sum_probs=36.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|..++|||+|+|+|++..  |.-  ...+ |.|.-... .+   ..++..+.+.|+||.|..
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~--~~~--~~~~-t~~~~~~~-~~---~~~~~~~~~~l~Dt~G~~   80 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH--FVD--EYDP-TIEDSYRK-QV---VIDGETCLLDILDTAGQE   80 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--CCS--CCCT-TCCEEEEE-EE---EETTEEEEEEEEECCC--
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC--Ccc--ccCC-ccceEEEE-EE---EECCEEEEEEEEECCChH
Confidence            47899999999999999999764  321  1112 22322211 11   123455789999999964

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.75  E-value=0.0019  Score=60.75  Aligned_cols=56  Identities=21%  Similarity=0.374  Sum_probs=36.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccC----CCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..|+|+|+.++|||+|+|+|.|..  |.+++.    +.. ..|...|         ++  ..+.++||.|....
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~~--~~~~~~~~~t~~~-~~~~~~~---------~~--~~l~i~Dt~G~~~~   63 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGEN--VYIGNWPGVTVEK-KEGEFEY---------NG--EKFKVVDLPGVYSL   63 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCCS--SSCC-----CCCC-CEEEEEE---------TT--EEEEEEECCCCSCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC--eeccCCCCcceee-eEEEEEE---------CC--cEEEEEECCCcccC
Confidence            468999999999999999999865  444321    111 1222211         12  56889999997543

>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=96.74  E-value=0.0011  Score=64.63  Aligned_cols=62  Identities=21%  Similarity=0.288  Sum_probs=39.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..-|.|+|+.++|||+|+|+|++..  |....   ..|.|+=.....+.   .++..+.+.|+||+|...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~~   69 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT--YTNDY---ISTIGVDFKIKTVE---LDGKTVKLQIWDTAGQER   69 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC--CCTTC---CCSSCCCEEEEEEE---ETTEEEEEEEECCTTTTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC--CCCCC---CCcccceeEEEEEE---ECCEEEEEEEEeCCChHH
Confidence            4468999999999999999999865  43221   12223211111111   134557899999999653

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=96.74  E-value=0.05  Score=48.55  Aligned_cols=98  Identities=17%  Similarity=0.147  Sum_probs=64.4

Q ss_pred             HHHhhHHhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          579 KSSSLSKTVDSLKNEISDWKRKYDQVLTK-------QKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWK  651 (716)
Q Consensus       579 ~~~~~~~~le~~k~e~~e~~r~y~~~i~~-------~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~  651 (716)
                      +..-|......++.|..+|+.+|+..-.+       .++.-..+...-..++.++..+|-.--+++++.-.+-.-.++--
T Consensus         4 ~~rdL~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E   83 (111)
T 2v66_B            4 RNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFE   83 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHH
Confidence            34445555555666666666666666333       22333333333344444566777777777777777777788888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhH
Q 005055          652 RKYGVAVREAKAALEKAAIVQERTSK  677 (716)
Q Consensus       652 ~kY~~~~~~~Ka~leq~~~~~~~~~e  677 (716)
                      .||..++ +-.|.||-++.--+.|.+
T Consensus        84 ~k~n~ai-ErnalLE~El~EKe~L~~  108 (111)
T 2v66_B           84 QRLNQAI-ERNAFLESELDEKESLLV  108 (111)
T ss_dssp             HHHHHHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            9999999 899999999886666544

>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=96.73  E-value=0.0008  Score=72.29  Aligned_cols=26  Identities=31%  Similarity=0.579  Sum_probs=23.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +..-|+|+|.+++|||+|+|.|+|..
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~   55 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRD   55 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSC
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCC
Confidence            34579999999999999999999975

>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=96.73  E-value=0.0014  Score=62.46  Aligned_cols=54  Identities=20%  Similarity=0.295  Sum_probs=35.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      =|.|+|+.++|||+|+|+|++..  |..+... ..|..+..+..        +   .+.++||+|++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~--~~~~~~~-~~t~~~~~~~~--------~---~~~l~Dt~G~~~   56 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK--VRRGKRP-GVTRKIIEIEW--------K---NHKIIDMPGFGF   56 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC--CSSSSST-TCTTSCEEEEE--------T---TEEEEECCCBSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC--CccCCCC-CccceeEEEec--------C---CEEEEECCCccc
Confidence            37899999999999999999876  6554331 12222221110        0   377899999753

>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=96.71  E-value=0.0011  Score=62.52  Aligned_cols=62  Identities=18%  Similarity=0.262  Sum_probs=38.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        11 ~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   72 (181)
T 2efe_B           11 INAKLVLLGDVGAGKSSLVLRFVKDQ--FVEFQ---ESTIGAAFFSQTLA---VNDATVKFEIWDTAGQE   72 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCC--CTTTS---CCCSCCSEEEEEEE---ETTEEEEEEEEECCCSG
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC--CCCcC---CCCceeEEEEEEEE---ECCEEEEEEEEeCCCCh
Confidence            34468999999999999999999765  32211   12333211111111   12345789999999954

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.71  E-value=0.0012  Score=63.84  Aligned_cols=59  Identities=22%  Similarity=0.348  Sum_probs=35.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|..
T Consensus        28 ki~vvG~~~~GKSsLi~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~l~l~Dt~G~~   86 (192)
T 2il1_A           28 QVIIIGSRGVGKTSLMERFTDDT--FCEAC---KSTVGVDFKIKTVE---LRGKKIRLQIWDTAGQE   86 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHCC-------------CCTTEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCcCC---CCccceeEEEEEEE---ECCeEEEEEEEeCCCcH
Confidence            47899999999999999999875  43211   22334332222221   13455789999999953

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=96.68  E-value=0.0022  Score=60.99  Aligned_cols=65  Identities=22%  Similarity=0.232  Sum_probs=38.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEee-cccccc------ccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLW-SAPLKR------TALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw-~~p~~~------~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|+.++|||+|+|+|++..  |...   ...|.|+-.. ...+..      ....+..+.+.|+||+|..
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~---~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   81 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDGK--FNSK---FITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLE   81 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC--CCCS---CCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSG
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcCC--CCcC---cccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcH
Confidence            34458899999999999999999765  3221   1223333221 000000      0011225789999999963

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.68  E-value=0.0019  Score=62.78  Aligned_cols=62  Identities=23%  Similarity=0.241  Sum_probs=39.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|+|+|..++|||+|+|+|++..  |...  . ..|.|.-.... +   ..++..+.+.|+||.|...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~--~~~~--~-~~t~~~~~~~~-~---~~~~~~~~~~l~Dt~G~~~   84 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE--FSEG--Y-DPTVENTYSKI-V---TLGKDEFHLHLVDTAGQDE   84 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC--CCSC--C-CCCSEEEEEEE-E---C----CEEEEEEEECCCCT
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC--CCCC--C-CCccceEEEEE-E---EECCEEEEEEEEECCCccc
Confidence            34468999999999999999999876  4321  1 23444333211 1   1234567889999999653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.68  E-value=0.0014  Score=62.84  Aligned_cols=63  Identities=21%  Similarity=0.301  Sum_probs=40.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .++.-|.|+|+.++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|..
T Consensus        14 ~~~~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   76 (196)
T 3tkl_A           14 DYLFKLLLIGDSGVGKSCLLLRFADDT--YTESY---ISTIGVDFKIRTIE---LDGKTIKLQIWDTAGQE   76 (196)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSC--CCSCC---CCCSSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCC--CCCCC---CCcccceEEEEEEE---ECCEEEEEEEEECCCcH
Confidence            345669999999999999999999765  43221   12333222211111   13455789999999954

>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=96.67  E-value=0.0016  Score=63.05  Aligned_cols=62  Identities=23%  Similarity=0.376  Sum_probs=40.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ....|+|+|+.++|||+|+|.|.|..  |....   ..|.|+-.....+.   .+|..+.+.+.||.|..
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~~--~~~~~---~~t~~~~~~~~~i~---~~g~~~~~~i~Dt~g~~   89 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRNE--FNLES---KSTIGVEFATRSIQ---VDGKTIKAQIWDTAGLE   89 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC--CCCSC---CCCCSEEEEEEEEE---ETTEEEEEEEEEECSCC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCC--CCCCC---CCccceEEEEEEEE---ECCEEEEEEEEECCCCc
Confidence            35679999999999999999999876  43221   22333322222111   13555677789999964

>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=96.66  E-value=0.0017  Score=62.31  Aligned_cols=60  Identities=20%  Similarity=0.326  Sum_probs=38.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|.|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|..
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   80 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAGR--FPDRT---EATIGVDFRERAVD---IDGERIKIQLWDTAGQE   80 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS--CCSSC---CCCCSCCEEEEEEE---ETTEEEEEEEEECCCSH
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC--CCCCC---CCCcceEEEEEEEE---ECCEEEEEEEEECCCch
Confidence            458999999999999999999765  42211   22333322221111   13445789999999964

>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=96.64  E-value=0.0016  Score=63.22  Aligned_cols=62  Identities=23%  Similarity=0.350  Sum_probs=39.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ....|+|+|+.++|||+|+|.|.|..  |....   ..|.|+-.....+.   .+|..+.+.+.||.|..
T Consensus         4 ~~~kv~lvG~~g~GKSTLl~~l~~~~--~~~~~---~~t~~~~~~~~~i~---~~g~~~~~~i~Dt~g~~   65 (199)
T 2f9l_A            4 YLFKVVLIGDSGVGKSNLLSRFTRNE--FNLES---KSTIGVEFATRSIQ---VDGKTIKAQIWDTAGQE   65 (199)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSC--CCC------CCCSCEEEEEEEE---ETTEEEEEEEEECSSGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCC--CCCCC---CCccceeEEEEEEE---ECCEEEEEEEEECCCch
Confidence            35679999999999999999999875  43211   12323221111111   13555778899999964

>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=96.64  E-value=0.0023  Score=59.68  Aligned_cols=56  Identities=20%  Similarity=0.188  Sum_probs=37.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|.|+|+.++|||+|+|+|++..  |.   .. ..|.|+-.....+     +  .+.+.++||+|...
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~~--~~---~~-~~t~~~~~~~~~~-----~--~~~~~~~Dt~G~~~   63 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVGE--VV---TT-IPTIGFNVETVTY-----K--NLKFQVWDLGGLTS   63 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS--CC---CC-CCCSSEEEEEEEE-----T--TEEEEEEEECCCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC--CC---Cc-CCcCccceEEEEE-----C--CEEEEEEECCCChh
Confidence            458899999999999999998765  42   11 2244543322211     1  36789999999753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.63  E-value=0.004  Score=71.10  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=23.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ....|+|+|.+++|||+|+|+|+|..
T Consensus        64 ~~~~V~vvG~~n~GKSTLIN~Llg~~   89 (550)
T 2qpt_A           64 GKPMVLVAGQYSTGKTSFIQYLLEQE   89 (550)
T ss_dssp             SCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999999986

>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=96.63  E-value=0.0014  Score=64.37  Aligned_cols=61  Identities=18%  Similarity=0.327  Sum_probs=40.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .+|..+.+.|+||.|..
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~l~l~Dt~G~~   86 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL--FPPGQ---GATIGVDFMIKTVE---INGEKVKLQIWDTAGQE   86 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS--CCTTC---CCCCSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC--CCCCC---CCccceeEEEEEEE---ECCEEEEEEEEECCCcH
Confidence            3458899999999999999999765  53322   23444332222221   24556789999999953

>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=96.61  E-value=0.0038  Score=59.17  Aligned_cols=63  Identities=22%  Similarity=0.143  Sum_probs=39.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +.+..-|.|+|+.++|||+|+|+|++..  |...  . ..|.|.-.... +   ..++..+.+-++||.|..
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~--~~~~--~-~~t~~~~~~~~-~---~~~~~~~~l~i~Dt~G~~   77 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKI--FVDD--Y-DPTIEDSYLKH-T---EIDNQWAILDVLDTAGQE   77 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSC--CCSC--C-CTTCCEEEEEE-E---EETTEEEEEEEEECCSCG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCC--CCCC--C-CCCccceeEEE-E---EeCCcEEEEEEEECCCch
Confidence            3456678999999999999999999764  3221  1 12333222111 1   123455667789999964

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=96.60  E-value=0.51  Score=44.63  Aligned_cols=135  Identities=17%  Similarity=0.244  Sum_probs=93.1

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          542 SEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLK---NEISDWKRKYDQVLTKQKAMEDQVCSE  618 (716)
Q Consensus       542 ~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k---~e~~e~~r~y~~~i~~~k~~~~~~~~~  618 (716)
                      ..-.+.|++.-. +....+....+....+.++..|++.+......|.+++   ...++-.-.|++.|..       +...
T Consensus        14 e~ad~KyeEvaR-~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~-------L~~k   85 (155)
T 2efr_A           14 SKNYHLENEVAR-LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKV-------LSDK   85 (155)
T ss_dssp             HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHH
T ss_pred             HHhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHH-------HHHH
Confidence            334456666555 7778888888888889999999988777666655544   4445555556665554       6667


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHH
Q 005055          619 IEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSS  692 (716)
Q Consensus       619 i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~  692 (716)
                      +.+.+.|...+|-.+..++..++.+..++..|+.+|..+-.    .|++...-    +..++.+=..|.+|+..
T Consensus        86 LKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~----eLd~tl~e----l~~~~~~~~~~~~~~~~  151 (155)
T 2efr_A           86 LKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISE----EMKQLEDK----VEELLSKNYHLENEVAR  151 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH----HHhcccchHHHHHHHHH
Confidence            77777788888888889999999999999999999987763    34432221    22235566666666543

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=96.59  E-value=0.54  Score=44.86  Aligned_cols=95  Identities=15%  Similarity=0.202  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 005055          550 DAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAA  629 (716)
Q Consensus       550 e~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~  629 (716)
                      +....+++.--++....+.++..+++|.+++..+....++++++...+.    ..+...+.....-...|++|++|+..+
T Consensus        27 E~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQ----a~L~qEr~~r~q~se~~~elq~ri~~L  102 (168)
T 3o0z_A           27 DTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQ----AILEAERRDRGHDSEMIGDLQARITSL  102 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555555555666666666666666666666666666655443    233334444444555566666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005055          630 EARLAAAREQALSAQEEVE  648 (716)
Q Consensus       630 eerl~~~~~ql~~ak~E~~  648 (716)
                      ++.+..+...+..+..|.-
T Consensus       103 ~~El~~~k~~~~k~~~e~r  121 (168)
T 3o0z_A          103 QEEVKHLKHNLEKVEGERK  121 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            6555555555555544444

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.59  E-value=0.0036  Score=59.54  Aligned_cols=61  Identities=18%  Similarity=0.155  Sum_probs=38.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      -..|+|+|+.++|||+|+|+|.|..  |.++... ..|...-.....+     +  .+.+.++||+|....
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~~--~~~~~~~-~~t~~~~~~~~~~-----~--~~~~~l~Dt~G~~~~   67 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGEN--VYIGNWP-GVTVEKKEGEFEY-----N--GEKFKVVDLPGVYSL   67 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTTC--EEEEECT-TSCCEEEEEEEEE-----T--TEEEEEEECCCCSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC--ccccCCC-CeeccceEEEEEe-----C--CcEEEEEECCCcCcc
Confidence            3579999999999999999999865  4443321 1121111111000     1  267889999997543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=96.59  E-value=0.0013  Score=68.08  Aligned_cols=26  Identities=31%  Similarity=0.579  Sum_probs=23.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +..-|+|+|.+++|||+|+|.|+|..
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            44579999999999999999999976

>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=96.57  E-value=0.0015  Score=60.56  Aligned_cols=53  Identities=25%  Similarity=0.286  Sum_probs=36.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+|+|+.++|||+|+|+|++..  |.   ...| |.|+-....       +...+.+.++||+|..
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~--~~---~~~~-t~~~~~~~~-------~~~~~~~~i~Dt~G~~   55 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE--IV---TTIP-TIGFNVETV-------EYKNISFTVWDVGGQD   55 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC--SS---CCCC-CSSCCEEEE-------ECSSCEEEEEECCCCG
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--cC---cccC-cCceeEEEE-------EECCEEEEEEEcCCCh
Confidence            7899999999999999998765  42   1122 555322211       1223679999999974

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.57  E-value=0.0029  Score=67.66  Aligned_cols=34  Identities=21%  Similarity=0.142  Sum_probs=26.0

Q ss_pred             HHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           60 AVAALQLVKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        60 Al~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +++-+...-.+-.+|+|+|+.++|||||+|.|+|
T Consensus        44 ~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           44 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3333333235667899999999999999999985

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=96.55  E-value=0.0029  Score=59.83  Aligned_cols=59  Identities=29%  Similarity=0.284  Sum_probs=37.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      =|+|+|..++|||+|+|+|.+..  |.-  ...+ |.|... ...+   ..++..+.+.++||+|...
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~~--~~~--~~~~-t~~~~~-~~~~---~~~~~~~~~~i~Dt~G~~~   65 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTNA--FPG--EYIP-TVFDNY-SANV---MVDGKPVNLGLWDTAGQED   65 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--CCS--SCCC-CSCCEE-EEEE---EETTEEEEEEEECCCCSGG
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CCC--CcCC-ccccee-EEEE---EECCEEEEEEEEECCCCHh
Confidence            48999999999999999999654  321  1112 222211 1111   1245567888999999753

>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=96.55  E-value=0.0022  Score=59.65  Aligned_cols=58  Identities=22%  Similarity=0.180  Sum_probs=32.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      =|+|+|+.++|||+|+|+|.|..  +...+    .|.|.-... .+   ..++..+.+.+.||.|...
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~~--~~~~~----~~~~~~~~~-~~---~~~~~~~~~~i~D~~g~~~   61 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGVE--DGPEA----EAAGHTYDR-SI---VVDGEEASLMVYDIWEQDG   61 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC----------------CEEEE-EE---EETTEEEEEEEEECC----
T ss_pred             EEEEECCCCCCHHHHHHHHcCcc--ccCCC----CccccceEE-EE---EECCEEEEEEEEECCCCcc
Confidence            48899999999999999999765  22111    122221111 01   1235567899999999653

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=96.55  E-value=0.0031  Score=60.94  Aligned_cols=62  Identities=21%  Similarity=0.195  Sum_probs=36.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|.|+|..++|||+|+|+|++..  |.-  ...+ |.|.-.. ..+   ..++..+.+.|+||.|...
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~~--~~~--~~~~-t~~~~~~-~~~---~~~~~~~~~~i~Dt~G~~~   80 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTNG--YPT--EYIP-TAFDNFS-AVV---SVDGRPVRLQLCDTAGQDE   80 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC------------C-CSSEEEE-EEE---EETTEEEEEEEEECCCSTT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC--CCC--CCCC-cccceeE-EEE---EECCEEEEEEEEECCCCHH
Confidence            34458899999999999999999875  532  1122 2232221 111   1235557788999999753

>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=96.54  E-value=0.0017  Score=62.93  Aligned_cols=61  Identities=28%  Similarity=0.310  Sum_probs=36.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|.|+|+.++|||+|+|+|++..  |.-.   ...|.|+-.....+.   .++..+.+.|+||+|..
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~l~i~Dt~G~~   88 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKNE--FREN---ISATLGVDFQMKTLI---VDGERTVLQLWDTAGQE   88 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHCC--CC-------------CEEEEEE---ETTEEEEEEEEECTTCT
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhCC--CCcc---CCCCccceeEEEEEE---ECCEEEEEEEEECCCCc
Confidence            3458999999999999999999765  4211   112334322221111   13455789999999954

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.54  E-value=0.00097  Score=64.51  Aligned_cols=62  Identities=32%  Similarity=0.460  Sum_probs=18.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCC--ceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGT--EYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~--~~~vvlLDTEGl~  139 (716)
                      .-|.|+|+.++|||+|+|+|++....|.-   ....|.|+-.....+.   .++.  .+.+.|+||.|..
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~~~~~~~---~~~~t~~~~~~~~~~~---~~~~~~~~~~~l~Dt~G~~   84 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSKGSKFLK---DYAMTSGVEVVVAPVT---IPDTTVSVELFLLDTAGSD   84 (208)
T ss_dssp             EEEEEC-------------------------------------CEEEE---CTTSSEEEEEEEEETTTTH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcccC---CCCCccceEEEEEEEE---ECCcccEEEEEEEECCCcH
Confidence            46899999999999999999987322431   1234555322222221   1333  5789999999974

>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=96.53  E-value=0.0015  Score=63.70  Aligned_cols=60  Identities=28%  Similarity=0.365  Sum_probs=34.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|.|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~l~l~Dt~G~~   85 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIENK--FKQDS---NHTIGVEFGSRVVN---VGGKTVKLQIWDTAGQE   85 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC-----------------CCEEEEEEE---ETTEEEEEEEECCTTHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC--CCccC---CCcccceeEEEEEE---ECCeeeEEEEEcCCCcH
Confidence            358899999999999999999865  43221   12333211111111   13445789999999964

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=96.52  E-value=0.64  Score=45.30  Aligned_cols=27  Identities=19%  Similarity=0.063  Sum_probs=15.5

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQAL  641 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~  641 (716)
                      ..+.+.++++++..+=||.+=|+..++
T Consensus       128 ~~~SleD~e~kln~aiEr~alLE~El~  154 (189)
T 2v71_A          128 TIMSLEDFEQRLNQAIERNAFLESELD  154 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666565556555555544

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.50  E-value=0.0053  Score=59.16  Aligned_cols=60  Identities=22%  Similarity=0.242  Sum_probs=39.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -.=|.|+|..++|||+|+|+|++..  |...   ...|.|.-.. ..+   ..++..+.+.|+||.|..
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~~--~~~~---~~~t~~~~~~-~~~---~~~~~~~~~~l~Dt~G~~   87 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTKR--FIWE---YDPTLESTYR-HQA---TIDDEVVSMEILDTAGQE   87 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSC--CCSC---CCTTCCEEEE-EEE---EETTEEEEEEEEECCCCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC--CCcc---cCCCCCceEE-EEE---EECCEEEEEEEEECCCCC
Confidence            3458899999999999999999865  4221   1223333221 111   123556789999999975

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=96.50  E-value=0.0025  Score=61.14  Aligned_cols=59  Identities=20%  Similarity=0.223  Sum_probs=39.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -.-|.|+|..++|||+|+|+|++..  |....  ...|.|+-....       ++..+.+.|+||.|...
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~~--~~~~~--~~~t~~~~~~~~-------~~~~~~~~i~Dt~G~~~   75 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPAQ--SSSKH--ITATVGYNVETF-------EKGRVAFTVFDMGGAKK   75 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCCC------C--CCCCSSEEEEEE-------EETTEEEEEEEECCSGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC--Ccccc--cccccceeEEEE-------EeCCEEEEEEECCCCHh
Confidence            3457899999999999999999876  54311  123555444322       13347899999999753

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=96.50  E-value=0.0024  Score=61.24  Aligned_cols=57  Identities=19%  Similarity=0.155  Sum_probs=38.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|+|+|..++|||+|+|+|++.. .|...   -..|.|+-.....+     +  .+.+.|+||.|...
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~-~~~~~---~~~t~~~~~~~~~~-----~--~~~~~l~Dt~G~~~   79 (190)
T 2h57_A           23 HVLCLGLDNSGKTTIINKLKPSN-AQSQN---ILPTIGFSIEKFKS-----S--SLSFTVFDMSGQGR   79 (190)
T ss_dssp             EEEEEECTTSSHHHHHHHTSCGG-GCCSS---CCCCSSEEEEEEEC-----S--SCEEEEEEECCSTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC-CCCCC---cCCccceeEEEEEE-----C--CEEEEEEECCCCHH
Confidence            47899999999999999999864 12211   12455654433222     2  26789999999653

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=96.48  E-value=0.0041  Score=68.73  Aligned_cols=65  Identities=23%  Similarity=0.268  Sum_probs=35.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      +..-|+|+|..++|||+|+|+|++..  |...+.....|......  ++..   .+ ...+.|+||+|.++..
T Consensus        33 ~~~kI~IvG~~~vGKSTLin~L~~~~--~~~~~~~~gtT~d~~~~--~~~~---~~-~~~l~liDTpG~~d~~   97 (423)
T 3qq5_A           33 FRRYIVVAGRRNVGKSSFMNALVGQN--VSIVSDYAGTTTDPVYK--SMEL---HP-IGPVTLVDTPGLDDVG   97 (423)
T ss_dssp             CCEEEEEECSCSTTTTTTTTSSCC---------------CCCCEE--EEEE---TT-TEEEEEEECSSTTCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHcCC--CCccCCCCCeeeeeEEE--EEEE---CC-CCeEEEEECcCCCccc
Confidence            34458999999999999999999876  43222222222221111  1110   11 1368999999997554

>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=96.48  E-value=0.0069  Score=58.87  Aligned_cols=26  Identities=35%  Similarity=0.356  Sum_probs=22.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +-..|+|+|+.++|||+|+|.|+|..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33579999999999999999999875

>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=96.47  E-value=0.0033  Score=59.85  Aligned_cols=57  Identities=21%  Similarity=0.219  Sum_probs=38.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|.|+|+.++|||+|+|+|++..  +.   .. ..|.|+-.....+     +  .+.+.++||+|..
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~--~~---~~-~~t~~~~~~~~~~-----~--~~~~~~~Dt~G~~   73 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED--VD---TI-SPTLGFNIKTLEH-----R--GFKLNIWDVGGQK   73 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC--CS---SC-CCCSSEEEEEEEE-----T--TEEEEEEEECCSH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC--CC---cc-cccCccceEEEEE-----C--CEEEEEEECCCCH
Confidence            44568999999999999999999865  21   11 2244533222211     1  3678999999974

>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=96.45  E-value=0.0025  Score=61.31  Aligned_cols=61  Identities=18%  Similarity=0.133  Sum_probs=40.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|..++|||+|+|+|.+..  |..   ....|.|.-.... +   ..++..+.+.++||.|..
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~--~~~---~~~~t~~~~~~~~-~---~~~~~~~~~~i~Dt~G~~   82 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGE--IPT---AYVPTVFENFSHV-M---KYKNEEFILHLWDTAGQE   82 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC--CCS---SCCCCSEEEEEEE-E---EETTEEEEEEEEEECCSG
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC--CCC---ccCCeeeeeeEEE-E---EECCEEEEEEEEECCCcH
Confidence            34458899999999999999999876  421   1123444443321 1   124556788999999964

>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=96.44  E-value=0.0015  Score=77.01  Aligned_cols=33  Identities=27%  Similarity=0.418  Sum_probs=26.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST  103 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~  103 (716)
                      ++--|+|+|.+.+|||+|+|.|+|.. -++.|.+
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~-~LP~g~g   82 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRD-FLPRGSG   82 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSC-CSCCSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC-ccCcCCc
Confidence            34478999999999999999999975 1255544

>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=96.44  E-value=0.0031  Score=60.62  Aligned_cols=58  Identities=22%  Similarity=0.289  Sum_probs=37.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||+|+|+|++..  |.-  ...+ |.|.-... .+   ..++..+.+.|+||.|..
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~~--~~~--~~~~-t~~~~~~~-~~---~~~~~~~~l~i~Dt~G~~   80 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTKR--FIS--EYDP-NLEDTYSS-EE---TVDHQPVHLRVMDTADLD   80 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS--CCS--CCCT-TCCEEEEE-EE---EETTEEEEEEEEECCC--
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC--CCc--ccCC-CccceeeE-EE---EECCEEEEEEEEECCCCC
Confidence            48899999999999999999765  431  2223 33332211 11   124556788999999964

>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=96.43  E-value=0.0025  Score=70.54  Aligned_cols=58  Identities=22%  Similarity=0.407  Sum_probs=37.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcc--ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGF--QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF--~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|+|+|+.++|||+|+|.|+|....+  ...+++...+.|.|.|.         |  ..+.++||.|+.
T Consensus       180 ~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~---------g--~~~~l~Dt~G~~  239 (439)
T 1mky_A          180 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFID---------G--RKYVFVDTAGLR  239 (439)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEET---------T--EEEEESSCSCC-
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEEC---------C--EEEEEEECCCCc
Confidence            3469999999999999999999975211  11112223345666653         3  357889999973

>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=96.42  E-value=0.0038  Score=60.66  Aligned_cols=63  Identities=17%  Similarity=0.130  Sum_probs=40.3

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|+|+|..++|||+|+|+|.|....|.-.++     .|.-.....+   ..++..+.+.+.||.|..
T Consensus        21 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~-----~~~~~~~~~~---~~~~~~~~l~i~Dt~g~~   83 (195)
T 3cbq_A           21 DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPE-----NPEDTYERRI---MVDKEEVTLVVYDIWEQG   83 (195)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTT-----SCTTEEEEEE---EETTEEEEEEEECCCCCS
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCC-----cccceEEEEE---EECCEEEEEEEEecCCCc
Confidence            45667999999999999999999876533432222     1111111111   124556788999999964

>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=96.42  E-value=0.0097  Score=57.47  Aligned_cols=57  Identities=19%  Similarity=0.192  Sum_probs=35.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccC--CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAST--HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~--~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|+|+|.|..   ...++  +.. |.+...+.      ..++..+.+.++||.|...
T Consensus        23 i~~vG~~~vGKTsLi~~l~~~~---~~~~~~~~~~-~~~~~~~~------~~~~~~~~l~i~Dt~G~~~   81 (196)
T 3llu_A           23 ILLMGLRRSGKSSIQKVVFHKM---SPNETLFLES-TNKIYKDD------ISNSSFVNFQIWDFPGQMD   81 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHSCC---CGGGGGGCCC-CCSCEEEE------ECCTTSCCEEEEECCSSCC
T ss_pred             EEEECCCCCCHHHHHHHHHhcC---CCcceeeecc-ccceeeee------ccCCCeeEEEEEECCCCHH
Confidence            7889999999999999999853   22221  112 22222211      1124557899999999643

>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=96.41  E-value=0.0041  Score=59.44  Aligned_cols=58  Identities=21%  Similarity=0.205  Sum_probs=36.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+-.-|.|+|..++|||+|+|+|.+.... ...+     |.|+-.+...+     +  .+.+.++||.|..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~-----t~~~~~~~~~~-----~--~~~~~i~Dt~G~~   71 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSP-----TIGSNVEEIVI-----N--NTRFLMWDIGGQE   71 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEEC-----CSCSSCEEEEE-----T--TEEEEEEECCC--
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcC-----CCccceEEEEE-----C--CEEEEEEECCCCH
Confidence            44456899999999999999999976521 2223     33322111111     1  2789999999974

>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=96.40  E-value=0.0024  Score=69.00  Aligned_cols=64  Identities=19%  Similarity=0.234  Sum_probs=32.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc-----CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS-----THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~-----~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|+|+|+.++|||+|+|.|+|.. -|..+.     .....|.|+-.....+.   .+|..+.+.++||.|+++
T Consensus        39 ~I~vvG~~g~GKSTLln~L~~~~-~~~~~~~~~~~~~~~~ti~~~~~~~~~~---~~~~~~~l~i~DTpG~gd  107 (361)
T 2qag_A           39 TLMVVGESGLGKSTLINSLFLTD-LYPERVIPGAAEKIERTVQIEASTVEIE---ERGVKLRLTVVDTPGYGD  107 (361)
T ss_dssp             CEEECCCTTSCHHHHHHHHTTCC-C---------------CEEEEEEEEC-------CEEEEEEEEC------
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCC-CCCCCcccCCCcccCCceeEEEEEEEee---cCCcccceEEEEeccccc
Confidence            36999999999999999999863 232221     01123555544332221   134446789999999864

>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=96.40  E-value=0.0037  Score=60.71  Aligned_cols=58  Identities=21%  Similarity=0.245  Sum_probs=36.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|..++|||+|+|+|.+..  |...  . ..|.|.-.... +   ..++..+.+.|+||.|...
T Consensus        28 i~vvG~~~~GKSsli~~l~~~~--~~~~--~-~~t~~~~~~~~-~---~~~~~~~~l~i~Dt~G~~~   85 (201)
T 2gco_A           28 LVIVGDGACGKTCLLIVFSKDQ--FPEV--Y-VPTVFENYIAD-I---EVDGKQVELALWDTAGQED   85 (201)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS--CCSS--C-CCSSCCCCEEE-E---EETTEEEEEEEECCCCSGG
T ss_pred             EEEECCCCCCHHHHHHHHHhCc--CCcc--c-CCcccceEEEE-E---EECCEEEEEEEEECCCchh
Confidence            7899999999999999999765  3211  1 11222211110 1   1134557899999999643

>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=96.40  E-value=0.0034  Score=60.33  Aligned_cols=58  Identities=24%  Similarity=0.370  Sum_probs=39.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .=|+|+|+.++|||+|+|+|++..  |....   ..|.|.+..  .+   ..+|..+.+.++||.|..
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~--~~~~~---~~t~~~~~~--~~---~~~~~~~~l~i~Dt~G~~   78 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGT--YVQEE---SPEGGRFKK--EI---VVDGQSYLLLIRDEGGPP   78 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSS--CCCCC---CTTCEEEEE--EE---EETTEEEEEEEEECSSSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC--CCCCc---CCCcceEEE--EE---EECCEEEEEEEEECCCCh
Confidence            348899999999999999999765  54221   224454331  11   124566788899999964

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.40  E-value=0.0012  Score=62.27  Aligned_cols=63  Identities=17%  Similarity=0.148  Sum_probs=39.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +-.=|.|+|+.++|||+|+|+|.+..  |...   ...|.|+-.....+..  +++..+.+.|+||.|..
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~~--~~~~---~~~t~~~~~~~~~~~~--~~~~~~~~~~~Dt~G~~   67 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQET--FGKQ---YKQTIGLDFFLRRITL--PGNLNVTLQIWDIGGQT   67 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGGG--TTHH---HHHTTTSSEEEEEEEE--TTTEEEEEEEEECTTCC
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhCc--CCCC---CCCceeEEEEEEEEEe--CCCCEEEEEEEECCCCc
Confidence            34458899999999999999999765  4311   1123342222111111  12345789999999954

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=96.40  E-value=0.013  Score=66.97  Aligned_cols=71  Identities=17%  Similarity=0.135  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHHHHHHH
Q 005055          630 EARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAEKVLSY  701 (716)
Q Consensus       630 eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~~~~~~  701 (716)
                      +++.+.+++.++..+++..+-+.+|+.+- +.+.++|+.+...++.+++.+..-..++++++..+..-+.-+
T Consensus       515 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~~~~~  585 (597)
T 3oja_B          515 KERQAFKLRETQARRTEADAKQKETEDLE-QENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKNRNP  585 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC---
T ss_pred             HhhhhhhHHHHHHHHHhhhhhhcchhhHH-hhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33444444444444444555555555554 455555555555555555555555555666655555444333

>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=96.39  E-value=0.0021  Score=61.80  Aligned_cols=58  Identities=24%  Similarity=0.357  Sum_probs=36.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|+.++|||+|+|+|++..  |..... ....+..++.+.       .++..+.+.|+||.|..
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~--~~~~~~~t~~~~~~~~~~~-------~~~~~~~~~i~Dt~G~~   81 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDKR--FQPVHDLTIGVEFGARMVN-------IDGKQIKLQIWDTAGQE   81 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC--CCC-----CCSSEEEEEEE-------ETTEEEEEEEECCTTGG
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC--CCCCCCCcccceeEEEEEE-------ECCEEEEEEEEECCCch
Confidence            48899999999999999999765  432111 001112222221       13455789999999964

>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=96.38  E-value=0.0038  Score=69.42  Aligned_cols=54  Identities=37%  Similarity=0.599  Sum_probs=33.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccc-cccCCCccc----ceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQ-VASTHRPCT----KGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~-~g~~~~~~T----kGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+|+|+|..++|||+|+|+|+|..  |. +..+ -..|    .+..-|           ....+.|+||.|++
T Consensus        24 ~~V~lvG~~nvGKSTL~n~l~~~~--~~~v~~~-~g~t~~~~~~~~~~-----------~~~~~~liDT~G~~   82 (456)
T 4dcu_A           24 PVVAIVGRPNVGKSTIFNRIAGER--ISIVEDT-PGVTRDRIYSSAEW-----------LNYDFNLIDTGGID   82 (456)
T ss_dssp             CEEEEECSSSSSHHHHHHHHEEEE--EC------------CEEEECTT-----------CSSCCEEECCCC--
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC--CcccCCC-CCcceeEEEEEEEE-----------CCceEEEEECCCCC
Confidence            479999999999999999999875  32 2211 1122    222222           12467899999986

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=96.38  E-value=0.31  Score=44.75  Aligned_cols=105  Identities=17%  Similarity=0.264  Sum_probs=76.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRS  626 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~  626 (716)
                      ..++.+..++..++........|+.++..+......+..+|.+-.....+..-++..++..    +..+...|.++..|+
T Consensus        17 ~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~----k~eLe~~l~el~~rl   92 (129)
T 2fxo_A           17 SMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKN----KIQLEAKVKEMNKRL   92 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence            4566677777777777777777777788888888888888877766666666666665443    567888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          627 TAAEARLAAAREQALSAQEEVEEWKRKYG  655 (716)
Q Consensus       627 ~~~eerl~~~~~ql~~ak~E~~~w~~kY~  655 (716)
                      ...+++.+.+......+..++.+++..-+
T Consensus        93 eeeee~~~~L~~~kkkle~e~~~Lk~~le  121 (129)
T 2fxo_A           93 EDEEEMNAELTAKKRKLEDECSELKRDID  121 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888877777777777776555443

>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=96.37  E-value=0.0028  Score=68.56  Aligned_cols=55  Identities=24%  Similarity=0.425  Sum_probs=35.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccc----ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQV----ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~----g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      ++.+|+|+|+.++|||+|+|.|.|..  +.+    +.|..+.+.-|.+          +|  ..+.++||.|+
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~--~~~~~~~~~T~d~~~~~i~~----------~g--~~v~l~DT~G~  236 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT--QKVDTKLFTTMSPKRYAIPI----------NN--RKIMLVDTVGF  236 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-------------CCSCEEEEEE----------TT--EEEEEEECCCB
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC--ccccCCcccccCCEEEEEEE----------CC--EEEEEEeCCCc
Confidence            56679999999999999999999875  332    2333332222222          23  45788999996

>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=96.37  E-value=0.0034  Score=59.94  Aligned_cols=61  Identities=21%  Similarity=0.166  Sum_probs=39.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|.|+|+.++|||+|+|+|++..  |...  . ..|.|.-.. ..+   ..++..+.+.++||.|..
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~~--~~~~--~-~~t~~~~~~-~~~---~~~~~~~~~~i~Dt~G~~   66 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKDC--FPEN--Y-VPTVFENYT-ASF---EIDTQRIELSLWDTSGSP   66 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC--CCSS--C-CCCSEEEEE-EEE---ECSSCEEEEEEEEECCSG
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcCC--CCCC--C-CCccceeEE-EEE---EECCEEEEEEEEECCCCh
Confidence            34458899999999999999999865  4321  1 123333221 111   123556789999999964

>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=96.37  E-value=0.0036  Score=64.92  Aligned_cols=55  Identities=22%  Similarity=0.314  Sum_probs=37.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccC----CCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVAST----HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ..|+++|..++|||+|+|+|.|..  +.+++.    +.+ ..|.+-           + .+.+.++||+|..+.
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~~--~~v~~~pg~tv~~-~~~~~~-----------~-~~~l~l~DtpG~~~~   62 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGHN--QRVGNWPGVTVER-KSGLVK-----------K-NKDLEIQDLPGIYSM   62 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCC--CCCCSSSCCCCSC-EEEECT-----------T-CTTEEEEECCCCSCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCC--CcccCCCCCcEEE-EEEEEe-----------c-CCeEEEEECCCcCcc
Confidence            468999999999999999999875  334332    211 122221           1 246889999998654

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.36  E-value=0.0035  Score=61.20  Aligned_cols=59  Identities=22%  Similarity=0.231  Sum_probs=36.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|.|+|..++|||+|+|+|++..  |...   ...|.|...... +   ..++..+.+.|+||+|...
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~--~~~~---~~~t~~~~~~~~-~---~~~~~~~~~~i~Dt~G~~~   85 (207)
T 2fv8_A           27 KLVVVGDGACGKTCLLIVFSKDE--FPEV---YVPTVFENYVAD-I---EVDGKQVELALWDTAGQED   85 (207)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS--CC----------CCEEEEE-E---EETTEEEEEEEEECTTCTT
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC--CCCc---CCCcccceEEEE-E---EECCEEEEEEEEECCCcHH
Confidence            48899999999999999999865  4321   122333322211 1   1235557899999999753

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=96.34  E-value=0.0025  Score=63.10  Aligned_cols=64  Identities=20%  Similarity=0.350  Sum_probs=39.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+..=|.|+|+.++|||+|+|+|++..  |....   ..|.|+=.....+.   .++..+.+.|+||.|...
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~~   74 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNE--FNMDS---KSTIGVEFATRTLE---IEGKRIKAQIWDTAGQER   74 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCC--CCC---------CCSEEEEEEE---ETTEEEEEEEECCTTTTT
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCC--CCCCC---CCcccceeEEEEEE---ECCEEEEEEEEECCCccc
Confidence            345569999999999999999999875  43221   12333211111111   134457899999999643

>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=96.34  E-value=0.0034  Score=61.13  Aligned_cols=56  Identities=20%  Similarity=0.185  Sum_probs=34.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcccc-ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQV-ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~-g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .++ -|+|+|+.++|||+|+|+|.+..  |.. .+|..+ +.+.+.|         ++  +.+.++||.|..
T Consensus        24 ~~~-ki~lvG~~~vGKSsLi~~l~~~~--~~~~~~t~~~-~~~~~~~---------~~--~~l~i~Dt~G~~   80 (198)
T 1f6b_A           24 KTG-KLVFLGLDNAGKTTLLHMLKDDR--LGQHVPTLHP-TSEELTI---------AG--MTFTTFDLGGHI   80 (198)
T ss_dssp             CCE-EEEEEEETTSSHHHHHHHHSCC--------CCCCC-SCEEEEE---------TT--EEEEEEEECC--
T ss_pred             CCc-EEEEECCCCCCHHHHHHHHhcCC--CCccCCCCCc-eeEEEEE---------CC--EEEEEEECCCcH
Confidence            344 57899999999999999999865  422 222222 2333322         22  678999999964

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=96.34  E-value=0.0024  Score=62.61  Aligned_cols=62  Identities=19%  Similarity=0.161  Sum_probs=38.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeecccccccc--C-----CCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTA--L-----DGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~--~-----~g~~~~vvlLDTEGl  138 (716)
                      .=|.|+|..++|||+|+|+|++..  |...   ...|.|+-.....+....  +     .+..+.+.|+||.|.
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~~--~~~~---~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   94 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDNK--FNPK---FITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   94 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSC--CCCE---EEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC--CCcC---CCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc
Confidence            348899999999999999999875  4221   123455433222221100  0     011478999999995

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.34  E-value=0.0013  Score=63.07  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +..-|.|+|+.++|||+|+|+|++..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44568999999999999999999875

>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=96.33  E-value=0.0047  Score=59.61  Aligned_cols=56  Identities=16%  Similarity=0.087  Sum_probs=37.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|+|+|+.++|||+|+|+|.+..  |..-    ..|.|.-.....+     ++  +.+.++||+|...
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~~--~~~~----~~t~~~~~~~~~~-----~~--~~~~i~Dt~G~~~   79 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKNDR--LATL----QPTWHPTSEELAI-----GN--IKFTTFDLGGHIQ   79 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSC--CCCC----CCCCSCEEEEEEE-----TT--EEEEEEECCCSGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC--CCcc----ccCCCCCeEEEEE-----CC--EEEEEEECCCCHH
Confidence            368899999999999999999765  4311    1233332221111     23  6789999999753

>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=96.32  E-value=0.0014  Score=62.30  Aligned_cols=62  Identities=21%  Similarity=0.294  Sum_probs=24.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..-|.|+|+.++|||+|+|+|.+..  |...   ...|.|+-.....+.   .+|..+.+.|+||.|..
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~~--~~~~---~~~t~~~~~~~~~~~---~~~~~~~~~l~Dt~G~~   68 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSEDA--FNST---FISTIGIDFKIRTIE---LDGKRIKLQIWDTAGQE   68 (183)
T ss_dssp             EEEEEEEECCCCC------------------C---HHHHHCEEEEEEEEE---ETTEEEEEEEEEC----
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC--CCCC---CCCcccceeEEEEEE---ECCEEEEEEEEcCCCCh
Confidence            45569999999999999999999765  4321   122344322211111   13555789999999964

>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=96.31  E-value=0.0032  Score=59.41  Aligned_cols=59  Identities=27%  Similarity=0.357  Sum_probs=38.8

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -.=|.|+|..++|||+|+|+|.+..  |..   ..| |.|.-. ...+   ..++..+.+.++||.|..
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~~--~~~---~~~-t~~~~~-~~~~---~~~~~~~~l~i~Dt~G~~   65 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTGS--YQV---LEK-TESEQY-KKEM---LVDGQTHLVLIREEAGAP   65 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHSC--CCC---CSS-CSSSEE-EEEE---EETTEEEEEEEEECSSSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC--CCC---cCC-CcceeE-EEEE---EECCEEEEEEEEECCCCc
Confidence            3458899999999999999999865  532   122 333221 1111   124556788999999964

>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=96.31  E-value=0.0018  Score=72.67  Aligned_cols=61  Identities=26%  Similarity=0.344  Sum_probs=28.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .++. |+|+|.+++|||+|+|+|+|....+ +. ....+|..+......     .+|  +.+.|+||.|+.
T Consensus       232 ~~~k-V~ivG~~nvGKSSLln~L~~~~~a~-vs-~~~gtT~d~~~~~i~-----~~g--~~l~liDT~G~~  292 (476)
T 3gee_A          232 EGVS-TVIAGKPNAGKSTLLNTLLGQERAI-VS-HMPGTTRDYIEECFI-----HDK--TMFRLTDTAGLR  292 (476)
T ss_dssp             HCEE-EEEECCTTSSHHHHHHHCC--------------------CEEEE-----ETT--EEEEEEC-----
T ss_pred             CCCE-EEEECCCCCCHHHHHHHHhCCCCcc-cC-CCCCceEEEEEEEEE-----ECC--eEEEEEECCCCC
Confidence            3454 8999999999999999999875222 21 122233333221111     123  679999999974

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=96.29  E-value=0.0017  Score=66.99  Aligned_cols=57  Identities=32%  Similarity=0.437  Sum_probs=33.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      -|.|+|..++|||+|+|.|+|... ..++++. .+|+++- |.   ..    +  ..+.|+||+|+...
T Consensus       101 ~v~~vG~~~vGKSslin~l~~~~~-~~~~~~~-g~T~~~~-~~---~~----~--~~~~l~DtpG~~~~  157 (262)
T 3cnl_A          101 RVLIVGVPNTGKSTIINKLKGKRA-SSVGAQP-GITKGIQ-WF---SL----E--NGVKILDTPGILYK  157 (262)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTCC------------CCSC-EE---EC----T--TSCEEESSCEECCC
T ss_pred             heEEeCCCCCCHHHHHHHHhcccc-cccCCCC-CCccceE-EE---Ee----C--CCEEEEECCCcccC
Confidence            578999999999999999998752 2334321 2444432 11   00    1  24678999998643

>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=96.29  E-value=0.013  Score=64.63  Aligned_cols=56  Identities=27%  Similarity=0.437  Sum_probs=35.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc--C-CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS--T-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~--~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .|+|+|.+++|||+|+|+|.|....+ +.+  + +.....|...|.         |  ..+.|+||.|+..
T Consensus         3 ~v~ivG~pnvGKStL~nrl~~~~~~~-v~~~~g~T~d~~~~~~~~~---------~--~~~~l~DT~G~~~   61 (439)
T 1mky_A            3 TVLIVGRPNVGKSTLFNKLVKKKKAI-VEDEEGVTRDPVQDTVEWY---------G--KTFKLVDTCGVFD   61 (439)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEET---------T--EEEEEEECTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCce-ecCCCCCccceeeEEEEEC---------C--eEEEEEECCCccc
Confidence            68999999999999999999876211 221  1 111234556663         2  3578899999853

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=96.27  E-value=0.0038  Score=59.91  Aligned_cols=55  Identities=18%  Similarity=0.207  Sum_probs=37.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|..++|||+|+|+|++..  |...   ...|.|+-.....       +..+.+.|+||.|..
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~~--~~~~---~~~t~~~~~~~~~-------~~~~~~~l~Dt~G~~   78 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASGQ--FNED---MIPTVGFNMRKIT-------KGNVTIKLWDIGGQP   78 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC--CCCS---CCCCCSEEEEEEE-------ETTEEEEEEEECCSH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CCCc---cCCCCceeEEEEE-------eCCEEEEEEECCCCH
Confidence            48899999999999999999765  4321   1234454433211       224789999999964

>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=96.27  E-value=0.003  Score=68.34  Aligned_cols=64  Identities=20%  Similarity=0.265  Sum_probs=38.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeecccc----c-cccCC-CCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPL----K-RTALD-GTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~----~-~~~~~-g~~~~vvlLDTEGl~  139 (716)
                      -|+|+|.+++|||+|+|.|.|..  +.+++    |..| +.|.+-|..+-    . ...|. .....+.|+||+|+.
T Consensus         4 kI~IVG~pnvGKSTL~n~Lt~~~--~~v~~~p~tTi~p-~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~   77 (363)
T 1jal_A            4 KCGIVGLPNVGKSTLFNALTKAG--IEAANYPFCTIEP-NTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLV   77 (363)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC--------CCCCCCC-CSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--CcccCCCCceECc-eEEEEecCCcccceeeeeecccceeeeEEEEEECCCCc
Confidence            37899999999999999999865  44442    3333 45766553210    0 00000 001468999999984

>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=96.26  E-value=0.0024  Score=62.27  Aligned_cols=60  Identities=20%  Similarity=0.317  Sum_probs=35.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|.|+|..++|||+|+|+|.+..  |....   ..|.|+-.....+.   .++..+.+.|+||.|..
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~l~i~Dt~G~~   89 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTGA--FSERQ---GSTIGVDFTMKTLE---IQGKRVKLQIWDTAGQE   89 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC--C-------------CEEEEEEE---ETTEEEEEEEECCTTCG
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCC--CCCCC---CCCcceEEEEEEEE---ECCEEEEEEEEECCCcH
Confidence            458999999999999999999765  43211   23444322111111   13445789999999963

>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=96.24  E-value=0.0016  Score=61.76  Aligned_cols=57  Identities=19%  Similarity=0.132  Sum_probs=35.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcc-ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGF-QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF-~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +-.-|.|+|+.++|||+|+|+|.+..  | ...     .|.|+-.....+     +  .+.+.++||+|...
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~~--~~~~~-----~t~~~~~~~~~~-----~--~~~~~i~Dt~G~~~   74 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIGE--VVTTK-----PTIGFNVETLSY-----K--NLKLNVWDLGGQTS   74 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSE--EEEEC-----SSTTCCEEEEEE-----T--TEEEEEEEEC----
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC--cCccC-----CcCccceEEEEE-----C--CEEEEEEECCCCHh
Confidence            44568899999999999999999765  3 122     244432221111     1  26789999999754

>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=96.23  E-value=0.0023  Score=62.85  Aligned_cols=57  Identities=16%  Similarity=0.105  Sum_probs=37.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|.|+|+.++|||+|+|+|++..  |....+....|.|...            ..+.+.++||+|...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~--~~~~~~~~~~~~~~~~------------~~~~~~l~Dt~G~~~   67 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS--VRPTVVSQEPLSAADY------------DGSGVTLVDFPGHVK   67 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS--CCCBCCCSSCEEETTG------------GGSSCEEEECCCCGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC--CCCeeeecCceEEEEe------------eCceEEEEECCCcHH
Confidence            44568899999999999999999875  4321111112222211            125688999999753

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=96.21  E-value=0.006  Score=59.48  Aligned_cols=62  Identities=23%  Similarity=0.155  Sum_probs=40.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..=|.|+|..++|||+|+|+|.+..  |..  .. ..|.|..... .+   ..++..+.+.|+||.|...
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~~--~~~--~~-~~t~~~~~~~-~~---~~~~~~~~~~i~Dt~G~~~   69 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSNK--FPT--DY-IPTVFDNFSA-NV---AVDGQIVNLGLWDTAGQED   69 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC--CCS--SC-CCSSCCCEEE-EE---ECSSCEEEEEEECCCCCCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCC--CCc--cC-CCccceeEEE-EE---EECCEEEEEEEEECCCcHH
Confidence            34458999999999999999999765  421  11 2233322211 11   1245568899999999753

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=96.21  E-value=0.0045  Score=60.81  Aligned_cols=59  Identities=22%  Similarity=0.193  Sum_probs=39.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      =|.|+|+.++|||+|+|+|.+..  |...  . ..|.|.-.. ..+   ..++..+.+.|+||.|...
T Consensus        30 ki~vvG~~~vGKSsLi~~l~~~~--~~~~--~-~~t~~~~~~-~~~---~~~~~~~~l~i~Dt~G~~~   88 (205)
T 1gwn_A           30 KIVVVGDSQCGKTALLHVFAKDC--FPEN--Y-VPTVFENYT-ASF---EIDTQRIELSLWDTSGSPY   88 (205)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC--CCSS--C-CCCSEEEEE-EEE---ESSSSEEEEEEEEECCSGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCCC--c-CCccceeEE-EEE---EECCEEEEEEEEeCCCcHh
Confidence            47899999999999999999865  5321  1 223343321 111   1245568899999999643

>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=96.21  E-value=0.0054  Score=58.31  Aligned_cols=55  Identities=22%  Similarity=0.218  Sum_probs=36.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      -|.|+|..++|||+|+|+|++..  |..    ...|.|+-.....+     +  .+.+.|+||.|...
T Consensus        23 ~i~v~G~~~~GKSsli~~l~~~~--~~~----~~~t~~~~~~~~~~-----~--~~~~~i~Dt~G~~~   77 (181)
T 2h17_A           23 KVIIVGLDNAGKTTILYQFSMNE--VVH----TSPTIGSNVEEIVI-----N--NTRFLMWDIGGQES   77 (181)
T ss_dssp             EEEEEEETTSSHHHHHHHHHTTS--CEE----EECCSSSSCEEEEE-----T--TEEEEEEEESSSGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCc----cCCcCceeeEEEEE-----C--CEEEEEEECCCCHh
Confidence            37899999999999999999876  411    11233422211111     2  26789999999753

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=96.20  E-value=0.9  Score=43.30  Aligned_cols=127  Identities=9%  Similarity=0.065  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDS  589 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~  589 (716)
                      +++...+..++++--+....++|++-+..+..    ..++..+.+|+..+-.+.+....|+.++..|+..+..-+.....
T Consensus        12 ekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~----~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q   87 (168)
T 3o0z_A           12 QKQLEEANDLLRTESDTAVRLRKSHTEMSKSI----SQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGH   87 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555556666666666677777764444332    34566666766666666666666666666666555544444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Q 005055          590 LKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQ  644 (716)
Q Consensus       590 ~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak  644 (716)
                      ...-+.|+..+...+-.+.+.    +...+..++.-...+.++++.++....+..
T Consensus        88 ~se~~~elq~ri~~L~~El~~----~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           88 DSEMIGDLQARITSLQEEVKH----LKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            444444555555555444433    333333333344456666666666644444

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.16  E-value=0.0065  Score=58.25  Aligned_cols=60  Identities=22%  Similarity=0.202  Sum_probs=38.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|.|+|..++|||+|+|+|++..  |.-  .. ..|.|.... ..+   ..++..+.+.++||.|...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~--~~~--~~-~~t~~~~~~-~~~---~~~~~~~~~~i~D~~G~~~   78 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA--FPE--EY-VPTVFDHYA-VSV---TVGGKQYLLGLYDTAGQED   78 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS--CCC--SC-CCSSCCCEE-EEE---ESSSCEEEEEEECCCCSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC--CCC--CC-CCcccceeE-EEE---EECCEEEEEEEEECCCCcc
Confidence            458899999999999999999764  421  11 123232221 111   1245567899999999753

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=96.16  E-value=0.0088  Score=57.05  Aligned_cols=67  Identities=22%  Similarity=0.191  Sum_probs=42.0

Q ss_pred             HHhhccC-CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           62 AALQLVK-EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        62 ~~L~~i~-~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +.|..-. .+-.-|.|+|+.++|||+|+|+|.+..  |.-   ..| |.|+-.....+       ..+.+.++||+|...
T Consensus        12 ~~l~~f~~~~~~~i~v~G~~~~GKssli~~l~~~~--~~~---~~~-t~~~~~~~~~~-------~~~~~~~~Dt~G~~~   78 (189)
T 2x77_A           12 QTLGLLPADRKIRVLMLGLDNAGKTSILYRLHLGD--VVT---TVP-TVGVNLETLQY-------KNISFEVWDLGGQTG   78 (189)
T ss_dssp             HHHHTSCTTSCEEEEEEEETTSSHHHHHHHTCCSC--CEE---ECS-STTCCEEEEEE-------TTEEEEEEEECCSSS
T ss_pred             HHhhhccCCCceEEEEECCCCCCHHHHHHHHHcCC--CCC---cCC-CCceEEEEEEE-------CCEEEEEEECCCCHh
Confidence            3344434 444569999999999999999998765  421   112 44432221111       136899999999754


Q ss_pred             c
Q 005055          141 Y  141 (716)
Q Consensus       141 ~  141 (716)
                      .
T Consensus        79 ~   79 (189)
T 2x77_A           79 V   79 (189)
T ss_dssp             S
T ss_pred             H
Confidence            3

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.16  E-value=0.0048  Score=60.20  Aligned_cols=60  Identities=25%  Similarity=0.267  Sum_probs=37.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|.|+|..++|||+|+|+|.+..  |. + ...+ |.|-..... +   ..++..+.+.++||.|...
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~~--~~-~-~~~~-t~~~~~~~~-~---~~~~~~~~l~i~Dt~G~~~   90 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTNA--FP-G-EYIP-TVFDNYSAN-V---MVDGKPVNLGLWDTAGLED   90 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC--CC-C--CCC-CSEEEEEEE-E---ECC-CEEEEEEEEECCSGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCC--CC-C-CcCC-eecceeEEE-E---EECCEEEEEEEEECCCchh
Confidence            357899999999999999999654  31 1 1112 223221111 1   1245667888999999753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=96.15  E-value=0.0012  Score=64.15  Aligned_cols=63  Identities=21%  Similarity=0.284  Sum_probs=39.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..=|.|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|...
T Consensus        32 ~~~ki~vvG~~~~GKSsli~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~~   94 (199)
T 3l0i_B           32 YLFKLLLIGDSGVGKSCLLLRFADDT--YTESY---ISTIGVDFKIRTIE---LDGKTIKLQIWDTAGQER   94 (199)
T ss_dssp             EEEEEEEECCTTSCCTTTTTSSBCCC--CCCHH---HHHHCCSEEEEEEE---ETTEEEEEEEECCTTCTT
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC--CCCCc---CCcccceEEEEEEE---ECCEEEEEEEEECCCcHh
Confidence            34568899999999999999999865  43221   11222111111111   134457899999999643

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=96.13  E-value=0.0048  Score=68.17  Aligned_cols=59  Identities=32%  Similarity=0.483  Sum_probs=29.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..|+|+|..++|||+|+|+|+|..  |..-+..-..|.........+     +|  ..+.|+||.|+.
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~--~~~v~~~~g~T~d~~~~~~~~-----~~--~~~~l~DT~G~~   62 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGER--ISIVEDTPGVTRDRIYSSAEW-----LN--YDFNLIDTGGID   62 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEE--CC-----------CEEEECTT-----CS--SCCEEEC-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC--ceeecCCCCCccceEEEEEEE-----CC--ceEEEEECCCCC
Confidence            368999999999999999999875  332111112332221111110     12  457889999985

>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=96.12  E-value=0.0061  Score=58.21  Aligned_cols=58  Identities=21%  Similarity=0.233  Sum_probs=40.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+..-|+|+|+.++|||+|+|+|.+..  |..    -..|.|+-.....+     +  .+.+.++||.|..
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~--~~~----~~~t~g~~~~~~~~-----~--~~~l~i~Dt~G~~   71 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASED--ISH----ITPTQGFNIKSVQS-----Q--GFKLNVWDIGGQR   71 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSC--CEE----EEEETTEEEEEEEE-----T--TEEEEEEECSSCG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCC--CCc----ccCcCCeEEEEEEE-----C--CEEEEEEECCCCH
Confidence            445678999999999999999999874  321    12356654332221     1  3678899999964

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=96.12  E-value=0.0053  Score=60.41  Aligned_cols=59  Identities=24%  Similarity=0.273  Sum_probs=32.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-|.|+|..++|||+|+|+|++..  |...  ..+ |.|.-.. ..+   ..++..+.+.|+||.|..
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~~--~~~~--~~~-t~~~~~~-~~~---~~~~~~~~l~l~Dt~G~~   93 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADGA--FPES--YTP-TVFERYM-VNL---QVKGKPVHLHIWDTAGQD   93 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-----------CC-CCCEEEE-EEE---EETTEEEEEEEEEC----
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC--CCCC--CCC-ccceeEE-EEE---EECCEEEEEEEEECCCch
Confidence            458899999999999999999865  4221  112 2222111 111   123556789999999964

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.11  E-value=0.0035  Score=67.94  Aligned_cols=57  Identities=23%  Similarity=0.237  Sum_probs=36.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC----CccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRS----SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~----~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |+++|..++|||+|+|.|+|..    ....+++.. .+|.++-...  +      +.  .+.|+||+|+...
T Consensus       165 i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~-gtT~~~~~~~--~------~~--~~~liDtPG~~~~  225 (369)
T 3ec1_A          165 VYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFP-GTTLDMIEIP--L------ES--GATLYDTPGIINH  225 (369)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECT-TSSCEEEEEE--C------ST--TCEEEECCSCCCC
T ss_pred             EEEEcCCCCchHHHHHHHHhhccCCccceeecCCC-CeEEeeEEEE--e------CC--CeEEEeCCCcCcH
Confidence            7789999999999999999861    123333221 2455442211  1      11  2688999999643

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.10  E-value=0.0047  Score=66.38  Aligned_cols=27  Identities=22%  Similarity=0.110  Sum_probs=23.2

Q ss_pred             cCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           67 VKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        67 i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ......+|+|+|..++|||||+|.|++
T Consensus        75 ~~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           75 DSGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             GCCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            345677899999999999999999863

>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=96.08  E-value=0.0058  Score=68.64  Aligned_cols=59  Identities=20%  Similarity=0.312  Sum_probs=37.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..|+|+|.+++|||+|+|+|+|..  +..-+....+|..+......     .+|  ..+.|+||.|+.
T Consensus       244 ~kV~ivG~pnvGKSSLln~L~~~~--~a~vs~~~gTT~d~~~~~i~-----~~g--~~~~l~DTaG~~  302 (482)
T 1xzp_A          244 LRMVIVGKPNVGKSTLLNRLLNED--RAIVTDIPGTTRDVISEEIV-----IRG--ILFRIVDTAGVR  302 (482)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHT--BCCCCCSSCCSSCSCCEEEE-----ETT--EEEEEEESSCCC
T ss_pred             CEEEEECcCCCcHHHHHHHHHCCC--CCccCCCCCeeeeeEEEEEe-----cCC--eEEEEEECCCcc
Confidence            358899999999999999999875  32212222233322111111     123  568999999985

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=96.06  E-value=0.0038  Score=60.51  Aligned_cols=64  Identities=23%  Similarity=0.236  Sum_probs=37.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..=|+|+|..++|||+|+|++.|....|.  +..  .|.|.-.....+   ..+|..+.++++||-|...
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~--~~~--~~~~~~~~~~~~---~~~~~~~~l~~~Dt~~~~~   68 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMD--SDX--EVLGEDTYERTL---MVDGESATIILLDMWENKG   68 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC--------GGGCTTEEEEEE---EETTEEEEEEEECCCCC--
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcC--ccc--cccceeEEEEEE---EECCeEEEEEEEEeccCcc
Confidence            455699999999999999999997543232  111  111211111111   1245567889999998643

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.05  E-value=0.0029  Score=59.68  Aligned_cols=58  Identities=21%  Similarity=0.211  Sum_probs=30.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      =|.|+|..++|||+|+|+|.+..  |..  .. ..|.|.-... .+   ..++..+.+.|+||+|..
T Consensus        10 ki~v~G~~~~GKssl~~~~~~~~--~~~--~~-~~t~~~~~~~-~~---~~~~~~~~~~i~Dt~G~~   67 (182)
T 3bwd_D           10 KCVTVGDGAVGKTCLLISYTSNT--FPT--DY-VPTVFDNFSA-NV---VVNGATVNLGLWDTAGQE   67 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC--CC-------------CBC-CC---C-------CEEECCCC-C
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCC--CC-CCeeeeeEEE-EE---EECCEEEEEEEEECCCCh
Confidence            47899999999999999999765  422  11 2233322211 11   124555778899999964

>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=96.02  E-value=0.0081  Score=58.64  Aligned_cols=59  Identities=19%  Similarity=0.302  Sum_probs=37.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..-|.|+|..++|||+|+|+|++..  |.-..  .+.+.....+  .+    .++..+.+.++||+|..
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~--~~~~~--~~~~~~~~~~--~~----~~~~~~~~~i~Dt~G~~   65 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ--YRDTQ--TSITDSSAIY--KV----NNNRGNSLTLIDLPGHE   65 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC--CCCBC--CCCSCEEEEE--EC----SSTTCCEEEEEECCCCH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC--ccccc--CCcceeeEEE--Ee----cCCCccEEEEEECCCCh
Confidence            3458899999999999999999765  43211  1222222221  11    11224789999999964

>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=95.96  E-value=0.011  Score=58.71  Aligned_cols=63  Identities=24%  Similarity=0.234  Sum_probs=38.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +..=|+|+|..++|||+|+|++.|....|.  +..  .|.|.-.....+   ..+|..+.++++||-|..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~--~~~--~~~g~d~~~~~i---~~~~~~~~l~~~Dt~g~~   98 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAGVHDSMD--SDC--EVLGEDTYERTL---MVDGESATIILLDMWENK   98 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTC--CC-----CCTTEEEEEE---EETTEEEEEEEECCTTTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCC--CcC--CccceeeEEEEE---EECCeeeEEEEeecCCCc
Confidence            345689999999999999999998653342  111  112221111111   124556788999999854

>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=95.95  E-value=0.003  Score=60.66  Aligned_cols=59  Identities=19%  Similarity=0.178  Sum_probs=36.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .=|.|+|..++|||+|+|+|++..  |....   ..|.|+-.....+.   .++..+.+.|+||.|.
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~   82 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT--FTPAF---VSTVGIDFKVKTVY---RHEKRVKLQIWDTAGQ   82 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT--TCCCE---EEEETTTEEEEEEE---ETTTTEEEEEECHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC--CCccc---CCCeeeEEEEEEEE---ECCEEEEEEEEeCCCh
Confidence            347899999999999999999764  32111   11222211111111   1344578999999994

>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=95.94  E-value=0.005  Score=67.75  Aligned_cols=60  Identities=27%  Similarity=0.308  Sum_probs=36.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC---Cc-cccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS---SG-FQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~---~g-F~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-.+|+|+|+.++|||||+|.|+|..   .| ..++ +. +.|+..+++..|.      .  ..+.+.|+.|++
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~-g~-~~t~~~~v~q~~~------~--~~ltv~D~~g~~  131 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTG-VV-EVTMERHPYKHPN------I--PNVVFWDLPGIG  131 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCC-C-----CCCEEEECSS------C--TTEEEEECCCGG
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCccCceEEEC-Ce-ecceeEEeccccc------c--CCeeehHhhccc
Confidence            45589999999999999999999942   22 1122 11 2233223433221      1  146778999986

>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=95.93  E-value=0.0016  Score=72.84  Aligned_cols=60  Identities=25%  Similarity=0.350  Sum_probs=32.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ++. |+|+|++++|||+|+|.|+|..  +...+.....|..+....  +   ..+|  +.+.|+||.|+.
T Consensus       224 ~~k-V~ivG~~nvGKSSLln~L~~~~--~a~v~~~~gtT~d~~~~~--i---~~~g--~~v~liDT~G~~  283 (462)
T 3geh_A          224 GLK-VAIVGRPNVGKSSLLNAWSQSD--RAIVTDLPGTTRDVVESQ--L---VVGG--IPVQVLDTAGIR  283 (462)
T ss_dssp             CEE-EEEEECTTSSHHHHHHHHHHHH--BSCCSCCTTCCHHHHHHE--E---EETT--EEEEECC-----
T ss_pred             CCE-EEEEcCCCCCHHHHHHHHhCCC--cccccCCCCeeEEEEEEE--E---EECC--EEEEEEECCccc
Confidence            443 8999999999999999999864  322222222333221110  0   0123  578999999974

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=95.87  E-value=0.0044  Score=67.16  Aligned_cols=58  Identities=26%  Similarity=0.192  Sum_probs=34.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCC-----ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSS-----GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~-----gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      -|+++|..++|||+|+|.|+|...     ...+++. ..+|+.+-...  +    .+    .+.|+||+|+...
T Consensus       162 ~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~-~gtT~~~~~~~--~----~~----~~~liDtPG~~~~  224 (368)
T 3h2y_A          162 DVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHF-PGTTLDLIDIP--L----DE----ESSLYDTPGIINH  224 (368)
T ss_dssp             CEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECC-C----CEEEEE--S----SS----SCEEEECCCBCCT
T ss_pred             eEEEecCCCCChhHHHHHHHhhhccccccceecCCC-CCeecceEEEE--e----cC----CeEEEeCCCcCcH
Confidence            367899999999999999998631     1222222 22455443321  1    11    2788999999654

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=95.87  E-value=0.0096  Score=62.59  Aligned_cols=59  Identities=24%  Similarity=0.262  Sum_probs=39.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|..++|||+|+|+|++....|.. + .-..|.|+-.....+     +| .+.+.++||+|...
T Consensus         6 I~lvG~~~vGKSSLi~~l~~~~~~~~~-~-~~~~Ti~~~~~~~~~-----~~-~~~l~i~Dt~G~~~   64 (307)
T 3r7w_A            6 LLLMGRSGSGKSSMRSIIFSNYSAFDT-R-RLGATIDVEHSHLRF-----LG-NMTLNLWDCGGQDV   64 (307)
T ss_dssp             EEEECCTTSSHHHHHHHHHSCCCTGGG-G-GCCCCCSEEEEEEEE-----TT-TEEEEEEEECCSHH
T ss_pred             EEEECCCCCCHHHHHHHHHhCCCCccc-c-CcCCccceEEEEEEe-----CC-ceEEEEEECCCcHH
Confidence            789999999999999999987544421 1 112344544432211     12 47899999999753

>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=95.86  E-value=0.009  Score=58.85  Aligned_cols=60  Identities=18%  Similarity=0.106  Sum_probs=40.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .=|.|+|..++|||+|+|+|++..  |..   ....|.|.-... .+   ..++..+.+.++||.|...
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~--~~~---~~~~t~~~~~~~-~~---~~~~~~~~l~i~Dt~G~~~   87 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC--YPE---TYVPTVFENYTA-CL---ETEEQRVELSLWDTSGSPY   87 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC--CCS---SCCCCSEEEEEE-EE---EC--CEEEEEEEEECCSGG
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC--CCC---CcCCeeeeeEEE-EE---EECCEEEEEEEEECCCCHh
Confidence            458899999999999999999765  532   112355554422 11   1245568899999999643

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.80  E-value=0.0063  Score=58.77  Aligned_cols=58  Identities=19%  Similarity=0.112  Sum_probs=37.2

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+-.-|.|+|+.++|||+|+|+|++..  |.-   . ..|.|+-.....       ...+.+.++||+|..
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~--~~~---~-~~t~~~~~~~~~-------~~~~~~~i~Dt~G~~   84 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGE--IVT---T-IPTIGFNVETVE-------YKNICFTVWDVGGQD   84 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSC--CEE---E-EEETTEEEEEEE-------ETTEEEEEEECC---
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCC--ccc---c-CCcCceeEEEEE-------ECCEEEEEEECCCCH
Confidence            344559999999999999999998765  431   1 225563322111       123789999999974

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=95.66  E-value=0.013  Score=64.72  Aligned_cols=61  Identities=20%  Similarity=0.309  Sum_probs=35.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..-|+|+|..++|||+|+|+|+|..  |..-+.....|......  ++.   .+|  ..+.|+||.|+..
T Consensus       175 ~~ki~lvG~~nvGKSSLin~l~~~~--~~~~~~~~gtT~d~~~~--~~~---~~~--~~~~l~DT~G~~~  235 (436)
T 2hjg_A          175 VIQFCLIGRPNVGKSSLVNAMLGEE--RVIVSNVAGTTRDAVDT--SFT---YNQ--QEFVIVDTAGMRK  235 (436)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTST--TEEEC---------CCE--EEE---ETT--EEEEETTHHHHTC
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCCC--ceeecCCCCceeeeeEE--EEE---ECC--eEEEEEECCCcCc
Confidence            3468999999999999999999876  33212222234332111  111   123  3588999999843

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.65  E-value=2.5  Score=57.13  Aligned_cols=81  Identities=16%  Similarity=0.300  Sum_probs=41.2

Q ss_pred             HHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 005055          567 NNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEE  646 (716)
Q Consensus       567 ~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E  646 (716)
                      +.++.+....++++....++|...+..+.+++.+|++.+.+    ++.++.+++..+       .|+..+++=+...-.|
T Consensus      2017 ~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~e----k~~L~~e~~~~~-------~kl~rA~~Li~gL~~E 2085 (3245)
T 3vkg_A         2017 EQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRE----TEQIKTESSKVK-------NKVDRSIALLDNLNSE 2085 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-------HHHHHHHHHHHhhhhc
Confidence            44444444444555555555555555555555555555544    344455555444       4444444444444555


Q ss_pred             HHHHHHHHHHHH
Q 005055          647 VEEWKRKYGVAV  658 (716)
Q Consensus       647 ~~~w~~kY~~~~  658 (716)
                      -.+|...-+.+-
T Consensus      2086 k~RW~~~~~~l~ 2097 (3245)
T 3vkg_A         2086 RGRWEQQSENFN 2097 (3245)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             cccHHHHHHHHH
Confidence            667765444443

>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=95.64  E-value=0.023  Score=62.10  Aligned_cols=65  Identities=14%  Similarity=0.123  Sum_probs=40.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcc-cccc---CCCcccceEEeeccc-cc--cccCCCC---ceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGF-QVAS---THRPCTKGLWLWSAP-LK--RTALDGT---EYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF-~~g~---~~~~~TkGIWmw~~p-~~--~~~~~g~---~~~vvlLDTEGl~  139 (716)
                      .|+|+|+.++|||||+|.|.|..  + .+++   ++...+.|...+..+ +.  ....++.   ...+.++||.|+.
T Consensus        22 ~vgiVG~pnaGKSTL~n~Ltg~~--~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~   96 (392)
T 1ni3_A           22 KTGIVGMPNVGKSTFFRAITKSV--LGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLT   96 (392)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHST--TTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC--cccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccc
Confidence            68999999999999999999854  2 2222   123346787666421 00  0000011   1357899999984

>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=95.62  E-value=0.011  Score=63.05  Aligned_cols=26  Identities=23%  Similarity=0.114  Sum_probs=22.7

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ..+..+|+|+|+.++|||||+|.|++
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            35667889999999999999999974

>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=95.55  E-value=0.028  Score=63.84  Aligned_cols=68  Identities=18%  Similarity=0.206  Sum_probs=36.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccC----------C-----CcccceEEeeccccccccCCCCceeEEEEe
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST----------H-----RPCTKGLWLWSAPLKRTALDGTEYNLLLLD  134 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~----------~-----~~~TkGIWmw~~p~~~~~~~g~~~~vvlLD  134 (716)
                      ...-|+|+|..++|||+|+|+|++....+.-.+.          +     ...+.||-+-......   +...+.+.|+|
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~---~~~~~~i~liD   88 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQF---PYHDCLVNLLD   88 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEE---EETTEEEEEEC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEE---EECCeEEEEEE
Confidence            4567999999999999999999964322211000          0     0124455433222111   12247799999


Q ss_pred             CCCCcc
Q 005055          135 SEGIDA  140 (716)
Q Consensus       135 TEGl~~  140 (716)
                      |+|..+
T Consensus        89 TPG~~d   94 (529)
T 2h5e_A           89 TPGHED   94 (529)
T ss_dssp             CCCSTT
T ss_pred             CCCChh
Confidence            999743

>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=95.53  E-value=0.031  Score=61.96  Aligned_cols=59  Identities=20%  Similarity=0.419  Sum_probs=37.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccC---CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVAST---HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~---~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +..-|+|+|..++|||+|+|+|+|... +.+++.   +.....+.+-|         +|  ..+.|+||.|+..
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~~~~~-~~~~~~~gtt~~~~~~~~~~---------~~--~~~~l~DT~G~~~  255 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAMLGEER-VIVSNVAGTTRDAVDTSFTY---------NQ--QEFVIVDTAGMRK  255 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTT-EEECC------CTTSEEEEE---------TT--EEEEETTGGGTTT
T ss_pred             ccceeEEecCCCCCHHHHHHHHhCCCc-cccCCCCCeEEEEEEEEEEE---------CC--ceEEEEECCCCCc
Confidence            455689999999999999999998752 223221   11111222222         22  4688999999853

>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=95.40  E-value=0.0044  Score=61.02  Aligned_cols=62  Identities=15%  Similarity=0.180  Sum_probs=37.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +-.=|.|+|..++|||+|+|++++..  |.-..   ..|.|+-.....+.   .++..+.+.++||.|..
T Consensus        14 ~~~ki~v~G~~~~GKSsli~~~~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~Dt~G~~   75 (221)
T 3gj0_A           14 VQFKLVLVGDGGTGKTTFVKRHLTGE--FEKKY---VATLGVEVHPLVFH---TNRGPIKFNVWDTAGQE   75 (221)
T ss_dssp             CEEEEEEEECTTSSHHHHHTTBHHHH--HTCEE---ETTTTEEEEEEEEE---ETTEEEEEEEEEECSGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC--CCCCC---CCccceeEEEEEEE---ECCEEEEEEEEeCCChH
Confidence            44458899999999999999966432  21110   12223222221111   13445789999999964

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=95.35  E-value=0.015  Score=63.55  Aligned_cols=70  Identities=16%  Similarity=0.138  Sum_probs=36.1

Q ss_pred             ccCCCEEEEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeeccc-cc--c--ccCC-CCceeEEEEeC
Q 005055           66 LVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAP-LK--R--TALD-GTEYNLLLLDS  135 (716)
Q Consensus        66 ~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p-~~--~--~~~~-g~~~~vvlLDT  135 (716)
                      .+..+. -|+|+|+.++|||+|+|.|.|..  +.+++    |..| +.|...+..+ +.  .  ..|. .-...+.|+||
T Consensus        18 ~i~~~~-kvgIVG~pnvGKSTL~n~Ltg~~--~~~~~~p~tTi~p-~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDt   93 (396)
T 2ohf_A           18 RFGTSL-KIGIVGLPNVGKSTFFNVLTNSQ--ASAENFPFCTIDP-NESRVPVPDERFDFLCQYHKPASKIPAFLNVVDI   93 (396)
T ss_dssp             CSSSCC-CEEEECCSSSSHHHHHHHHHC---------------CC-SEEEEECCCHHHHHHHHHHCCSEEECCEEEEEEC
T ss_pred             hccCCC-EEEEECCCCCCHHHHHHHHHCCC--ccccCCCccccCc-eeEEEEECCccceeeccccCcccccccccEEEEC
Confidence            344343 37899999999999999999875  33332    3333 3455544221 00  0  0000 00135899999


Q ss_pred             CCCc
Q 005055          136 EGID  139 (716)
Q Consensus       136 EGl~  139 (716)
                      .|+.
T Consensus        94 pGl~   97 (396)
T 2ohf_A           94 AGLV   97 (396)
T ss_dssp             CC--
T ss_pred             CCcc
Confidence            9984

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.31  E-value=0.015  Score=65.57  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=20.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhh
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .+..||+|+|++++|||||+|.|+
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            356789999999999999999999

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.29  E-value=0.0054  Score=60.16  Aligned_cols=32  Identities=34%  Similarity=0.518  Sum_probs=24.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC---CccccccCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS---SGFQVASTH  104 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~---~gF~~g~~~  104 (716)
                      +|+|+||.|+|||||++.|+|..   .|+.+.++.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~~~~~~~~v~~tt   40 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEHSSIFGFSVSHTT   40 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTEEECCCEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCchhceeeeeeec
Confidence            68899999999999999998742   345554443

>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=95.28  E-value=0.021  Score=62.95  Aligned_cols=63  Identities=22%  Similarity=0.303  Sum_probs=31.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC---CccccccCC-CcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRS---SGFQVASTH-RPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~---~gF~~g~~~-~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|+.++|||||+|.|+|..   .|.. +... .+.|.++-..+..+.   .++....+-+.||.|++.
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~~~~~~~~-~~~~~~~~t~~~~~i~~v~q---~~~~~~~Ltv~Dt~g~~~  100 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTDLYSPEYP-GPSHRIKKTVQVEQSKVLIK---EGGVQLLLTIVDTPGFGD  100 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCCCCCCCCC-SCC-----CCEEEEEECC---------CEEEEEEECC----
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCCCCCC-CcccCCccceeeeeEEEEEe---cCCcccceeeeechhhhh
Confidence            4999999999999999999874   2210 0000 122333322111111   123335678899999863

>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=95.26  E-value=0.011  Score=63.30  Aligned_cols=57  Identities=21%  Similarity=0.223  Sum_probs=38.7

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ++-|+|+|..++|||+|+|+|.+..  +.+.+   ++...+-|++-+.        +  ...++|+||+|+.
T Consensus       158 la~V~lvG~~nvGKSTLln~L~~~~--~~i~~~~ftTl~p~~g~v~~~--------~--~~~~~l~DtPG~i  217 (342)
T 1lnz_A          158 LADVGLVGFPSVGKSTLLSVVSSAK--PKIADYHFTTLVPNLGMVETD--------D--GRSFVMADLPGLI  217 (342)
T ss_dssp             CCCEEEESSTTSSHHHHHHHSEEEC--CEESSTTSSCCCCCEEEEECS--------S--SCEEEEEEHHHHH
T ss_pred             cCeeeeeCCCCCCHHHHHHHHHcCC--CccccCCccccCceEEEEEeC--------C--CceEEEecCCCCc
Confidence            4579999999999999999999764  33321   2222344554331        1  1468999999974

>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=95.25  E-value=0.015  Score=58.07  Aligned_cols=58  Identities=22%  Similarity=0.385  Sum_probs=36.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++.+..  |.-.   -..|.|+-.....+.   .++..+.+-+.||.|..
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~--f~~~---~~~Tig~d~~~k~~~---~~~~~v~l~iwDtaGqe   73 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS--FDNT---YQATIGIDFLSKTMY---LEDRTIRLQLWDTAGLE   73 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CC-------------CEEEEEE---CSSCEEEEEEECCSCTT
T ss_pred             EEEECcCCcCHHHHHHHHHhCC--CCCC---cCCccceEEEEEEEE---ecceEEEEEEEECCCch
Confidence            6789999999999999998655  6432   234666655443332   24667889999999964

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=95.22  E-value=0.14  Score=58.38  Aligned_cols=41  Identities=22%  Similarity=0.196  Sum_probs=26.1

Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          618 EIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       618 ~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      ++..++.+...+|.++...++++...++|++.|+++..+++
T Consensus       538 ~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~  578 (597)
T 3oja_B          538 ETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLE  578 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            33334444446666666666777777777777777776666

>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=95.21  E-value=0.026  Score=63.14  Aligned_cols=28  Identities=29%  Similarity=0.281  Sum_probs=23.1

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+..-|+|+|...+|||+|+|+|++..
T Consensus        30 ~k~~~ki~iiG~~~~GKSTLi~~Ll~~~   57 (483)
T 3p26_A           30 ALPHLSFVVLGHVDAGKSTLMGRLLYDL   57 (483)
T ss_dssp             SCCEEEEEEESCGGGTHHHHHHHHHHHT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3455557899999999999999998664

>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=95.17  E-value=0.049  Score=59.39  Aligned_cols=26  Identities=23%  Similarity=0.464  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|-.-|+|+|..++|||+|+|+|.|.
T Consensus         6 ~~~~~I~vvG~~~~GKSTLi~~L~~~   31 (403)
T 3sjy_A            6 QPEVNIGVVGHVDHGKTTLVQAITGI   31 (403)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCc
Confidence            45557999999999999999999985

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=95.13  E-value=0.032  Score=65.43  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=22.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ..+..|+|+|..++|||+|+|+|++
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~   32 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILY   32 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4577899999999999999999994

>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=95.12  E-value=0.021  Score=62.95  Aligned_cols=27  Identities=19%  Similarity=0.209  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +-+.-|+|+|+.++|||||||.|+|..
T Consensus        40 Gei~~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           40 GFCFNILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             CCEEEEEEECSTTSSSHHHHHHHHTSC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhCcc
Confidence            333349999999999999999999974

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.11  E-value=0.015  Score=60.19  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|+|+|+.++|||||||.|+|.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999984

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=95.11  E-value=0.026  Score=58.82  Aligned_cols=63  Identities=24%  Similarity=0.344  Sum_probs=40.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      ...-|.|+|..++|||+|+|++.+..  |.  ....+.|...+...  +   ..++..+.+.|+||.|....
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~--~~--~~~~~t~~~~~~~~--~---~~~~~~~~~~l~Dt~G~~~~  216 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNA--FP--GEYIPTVFDNYSAN--V---MVDGKPVNLGLWDTAGLEDY  216 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSC--CC--CSCCCCSEEEEEEE--E---EETTEEEEEEEEEECCCGGG
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCC--CC--cccCCcccceeEEE--E---EECCEEEEEEEEeCCCchhh
Confidence            33458899999999999999999654  31  11223332223221  1   12455677889999997543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.06  E-value=0.0085  Score=57.65  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|++..
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            78999999999999999999753

>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=93.99  E-value=0.0042  Score=60.34  Aligned_cols=60  Identities=27%  Similarity=0.224  Sum_probs=37.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .-|.|+|..++|||+|+|+|++..  |.-.  ..+ |.|-... ..+   ..++..+.+.++||.|...
T Consensus        31 ~ki~v~G~~~~GKSsli~~l~~~~--~~~~--~~~-t~~~~~~-~~~---~~~~~~~~l~i~Dt~G~~~   90 (204)
T 3th5_A           31 IKCVVVGDGAVGKTCLLISYTTNA--FPGE--YIP-TVFDNYS-ANV---MVDGKPVNLGLWDTAGQED   90 (204)
Confidence            348899999999999999999754  4211  112 2222111 111   1234556778999999743

>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=94.98  E-value=0.066  Score=58.47  Aligned_cols=28  Identities=18%  Similarity=0.299  Sum_probs=24.8

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..|...|+|+|...+|||+|+|+|.|..
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~   34 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVW   34 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCc
Confidence            4677889999999999999999999763

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=94.98  E-value=0.018  Score=65.34  Aligned_cols=101  Identities=16%  Similarity=0.265  Sum_probs=52.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccc----------cCCC-----cccceEEeeccccccccCCCCceeEEEEe
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVA----------STHR-----PCTKGLWLWSAPLKRTALDGTEYNLLLLD  134 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g----------~~~~-----~~TkGIWmw~~p~~~~~~~g~~~~vvlLD  134 (716)
                      .+-.|+|+|..++|||+|+|+|++........          +++.     ....||=+-......   +...+.+.|+|
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~---~~~~~~i~liD   88 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQF---PYKDYLINLLD   88 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEE---EETTEEEEEEC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEE---EeCCEEEEEEE
Confidence            46689999999999999999997322111000          0000     001122111111110   01236789999


Q ss_pred             CCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          135 SEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       135 TEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      |+|..++.     ..+.-++...=.-++|+.....+..+....+
T Consensus        89 TPG~~df~-----~~~~~~l~~aD~allVvDa~~g~~~~t~~~~  127 (528)
T 3tr5_A           89 TPGHADFT-----EDTYRTLTAVDSALMVIDAAKGVEPRTIKLM  127 (528)
T ss_dssp             CCCSTTCC-----HHHHHGGGGCSEEEEEEETTTCSCHHHHHHH
T ss_pred             CCCchhHH-----HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH
Confidence            99975322     1233344444445667776665655555443

>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=94.92  E-value=0.032  Score=60.45  Aligned_cols=64  Identities=20%  Similarity=0.195  Sum_probs=37.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccccc----CCCcccceEEeecccc-----ccccCCC-----CceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVAS----THRPCTKGLWLWSAPL-----KRTALDG-----TEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~----~~~~~TkGIWmw~~p~-----~~~~~~g-----~~~~vvlLDTEGl  138 (716)
                      -|+|+|++++|||+|+|.|.+..  +.+++    |+. .|.|+.-...+-     ....+..     ....+.|+||+|+
T Consensus         3 ~v~IVG~pnvGKSTL~n~L~~~~--~~v~~~p~~Ti~-pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl   79 (368)
T 2dby_A            3 AVGIVGLPNVGKSTLFNALTRAN--ALAANYPFATID-KNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGL   79 (368)
T ss_dssp             SEEEECCSSSSHHHHHHHHHHHH--TTCSSCCGGGGS-TTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--CcccCCCCceec-cceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCc
Confidence            37899999999999999999753  22221    222 355665221100     0000111     1257899999998


Q ss_pred             c
Q 005055          139 D  139 (716)
Q Consensus       139 ~  139 (716)
                      .
T Consensus        80 ~   80 (368)
T 2dby_A           80 V   80 (368)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=94.91  E-value=0.035  Score=63.87  Aligned_cols=104  Identities=17%  Similarity=0.293  Sum_probs=52.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccc---cccCCC-----cccceEEeeccccc--cccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQ---VASTHR-----PCTKGLWLWSAPLK--RTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~---~g~~~~-----~~TkGIWmw~~p~~--~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+--|+|+|...+|||+|+|+|++....+.   ++.++-     -.+.||=+-.....  ...++|..+.+-|+||+|..
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            466789999999999999999985321111   111110     11344443322111  11235666889999999975


Q ss_pred             ccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       140 ~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      ++.     ....-++...=.-++||.....+..+.+..+
T Consensus        85 dF~-----~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~  118 (600)
T 2ywe_A           85 DFS-----YEVSRALAACEGALLLIDASQGIEAQTVANF  118 (600)
T ss_dssp             GGH-----HHHHHHHHTCSEEEEEEETTTBCCHHHHHHH
T ss_pred             hHH-----HHHHHHHHhCCEEEEEEECCCCccHHHHHHH
Confidence            432     1233344444445667766655555554443

>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=94.90  E-value=0.013  Score=61.49  Aligned_cols=21  Identities=33%  Similarity=0.479  Sum_probs=19.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |+|+|+.++|||+|+|.|+|.
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            499999999999999999986

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=94.86  E-value=0.024  Score=64.20  Aligned_cols=65  Identities=23%  Similarity=0.280  Sum_probs=37.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccc-----cccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLK-----RTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~-----~~~~~g~~~~vvlLDTEGl~  139 (716)
                      +-.=|+++|..++|||+|+|+|.|..  |.   .....|.|+-+...-.+     ....++..+.+.+.||.|..
T Consensus        40 ~~~kV~lvG~~~vGKSSLl~~l~~~~--~~---~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e  109 (535)
T 3dpu_A           40 QEIKVHLIGDGMAGKTSLLKQLIGET--FD---PKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQE  109 (535)
T ss_dssp             CEEEEEEESSSCSSHHHHHHHHHC----------------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC--CC---CCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHH
Confidence            34568899999999999999999875  43   11233555544322100     00123446889999999954

>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=94.81  E-value=0.011  Score=58.59  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSS   96 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~   96 (716)
                      +|+|+||.++|||+|+|.|++...
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            577999999999999999997643

>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=94.77  E-value=0.022  Score=59.67  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++++|+.++|||||||.|+|..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            78999999999999999999863

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=94.77  E-value=0.038  Score=63.62  Aligned_cols=104  Identities=17%  Similarity=0.292  Sum_probs=49.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccc---cccCCC-----cccceEEeeccccc--cccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQ---VASTHR-----PCTKGLWLWSAPLK--RTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~---~g~~~~-----~~TkGIWmw~~p~~--~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+--|+|+|...+|||+|+++|++....+.   ++.++-     -.+.||=+-.....  ....+|..+.+-|+||+|..
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            456689999999999999999986432221   111111     11345544322111  11125667889999999974


Q ss_pred             ccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       140 ~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      ++.     ..+.-+|...=.-++||.....+..+.+..+
T Consensus        83 dF~-----~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~  116 (599)
T 3cb4_D           83 DFS-----YEVSRSLAACEGALLVVDAGQGVEAQTLANC  116 (599)
T ss_dssp             GGH-----HHHHHHHHHCSEEEEEEETTTCCCTHHHHHH
T ss_pred             HHH-----HHHHHHHHHCCEEEEEEECCCCCCHHHHHHH
Confidence            332     1233344444445666666555554444443

>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=94.73  E-value=0.028  Score=61.36  Aligned_cols=102  Identities=14%  Similarity=0.189  Sum_probs=52.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC--CCc----cc---cccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR--SSG----FQ---VAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~--~~g----F~---~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .+..-|+|+|...+|||+|+|+|++.  ..|    |.   +... ....+.||=+-......   +.....+.|+||+|.
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~---~~~~~~~~iiDtpG~   85 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEY---ETAKRHYSHVDCPGH   85 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEE---ECSSCEEEEEECCCS
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEe---ccCCeEEEEEECCCh
Confidence            46667999999999999999999873  111    11   1000 00113343211110000   112357899999997


Q ss_pred             cccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          139 DAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       139 ~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      ..+     ....+..+...=.-++||.....+..+..+.+
T Consensus        86 ~~f-----~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l  120 (405)
T 2c78_A           86 ADY-----IKNMITGAAQMDGAILVVSAADGPMPQTREHI  120 (405)
T ss_dssp             GGG-----HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH
T ss_pred             HHH-----HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH
Confidence            532     12233333333334566666544444444433

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=94.71  E-value=0.25  Score=42.19  Aligned_cols=77  Identities=10%  Similarity=0.054  Sum_probs=63.6

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHHHHHHH
Q 005055          619 IEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFSSTLAE  696 (716)
Q Consensus       619 i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~~~~~~  696 (716)
                      |.+|+.++..+-..-+.+.-+++.++..+++|+.||+.=+ ..++..|..+...++-+.++-..--+|...+.+.-.|
T Consensus         2 i~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~-~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eE   78 (86)
T 3swk_A            2 MRELRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEM-LQREEAENTLQSFRQDVDNASLARLDLERKVESLQEE   78 (86)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555556666677777888899999999999999999 7999999999999999999988888888877776543

>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=94.66  E-value=0.06  Score=59.30  Aligned_cols=27  Identities=30%  Similarity=0.491  Sum_probs=23.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+..-|+|+|...+|||+|+|+|++..
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~   48 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDS   48 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhc
Confidence            466678999999999999999998654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=94.63  E-value=0.0069  Score=68.87  Aligned_cols=93  Identities=17%  Similarity=0.288  Sum_probs=48.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHH
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIF  152 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IF  152 (716)
                      +|+|+|...+|||+|+|+|.+..  |.... ....|..+-.+..++    +++  ..+.|+||+|...+......     
T Consensus         6 kV~IvG~~~vGKTSLl~~L~~~~--~~~~~-~~giT~~i~~~~v~~----~~g--~~i~~iDTPGhe~f~~~~~~-----   71 (537)
T 3izy_P            6 VVTIMGHVDHGKTTLLDKLRKTQ--VAAME-AGGITQHIGAFLVSL----PSG--EKITFLDTPGHAAFSAMRAR-----   71 (537)
T ss_dssp             BCEEEESTTTTHHHHHHHHHHHH--HHHSS-SCCBCCCTTSCCBCS----SCS--SCCBCEECSSSCCTTTSBBS-----
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--ccccc-CCceeEEEeEEEEEe----CCC--CEEEEEECCChHHHHHHHHH-----
Confidence            58999999999999999998754  33221 111222222222211    123  35778899997544332111     


Q ss_pred             HHhhhccceEEEccCCCCchHhhhhhH
Q 005055          153 SLAVLLSSMFIYNQMGGIDESAIDRLS  179 (716)
Q Consensus       153 aLa~LLSS~~IyN~~g~i~e~~l~~L~  179 (716)
                      .+...=.-++||.....+..+..+.+.
T Consensus        72 ~~~~aD~vILVVDa~dg~~~qt~e~l~   98 (537)
T 3izy_P           72 GTQVTDIVILVVAADDGVMKQTVESIQ   98 (537)
T ss_dssp             SSBSBSSCEEECBSSSCCCHHHHHHHH
T ss_pred             HHccCCEEEEEEECCCCccHHHHHHHH
Confidence            001101124566655555555555443

>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=94.58  E-value=0.025  Score=62.24  Aligned_cols=57  Identities=28%  Similarity=0.251  Sum_probs=38.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      ..+|+|+|+.++|||||||.|.|..  ..+..   +....+.|...+.         + ...+.+.||.|+.
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Lsg~~--~~i~~~~ftTl~p~~G~V~~~---------~-~~~~~l~DtpGli  216 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMTRAH--PKIAPYPFTTLSPNLGVVEVS---------E-EERFTLADIPGII  216 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHCSSC--CEECCCTTCSSCCEEEEEECS---------S-SCEEEEEECCCCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCC--ccccCcccceecceeeEEEec---------C-cceEEEEeccccc
Confidence            4579999999999999999999874  22221   1122344554331         1 2457889999974

>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=94.52  E-value=0.042  Score=61.53  Aligned_cols=96  Identities=14%  Similarity=0.199  Sum_probs=48.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCC-----ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSS-----GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGT  146 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~-----gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~  146 (716)
                      ..|+|+|...+|||+|+|+|.|...     .+... .....|..+-.+..++     +  ...+.|+||+|...+.    
T Consensus        20 ~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e-~~~GiTi~~~~~~~~~-----~--~~~i~iiDtPGh~~~~----   87 (482)
T 1wb1_A           20 INLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPES-QKRGITIDIGFSAFKL-----E--NYRITLVDAPGHADLI----   87 (482)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTC---------------------CCCEEEE-----T--TEEEEECCCSSHHHHH----
T ss_pred             CEEEEECCCCChHHHHHHHHHCCCccccccccccc-ccCccEEecceEEEEE-----C--CEEEEEEECCChHHHH----
Confidence            4589999999999999999998651     11110 0011222221111111     1  2578899999963211    


Q ss_pred             chhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          147 YSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       147 ~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                       ...+..++..=.-++||.....+..+..+++.+
T Consensus        88 -~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~  120 (482)
T 1wb1_A           88 -RAVVSAADIIDLALIVVDAKEGPKTQTGEHMLI  120 (482)
T ss_dssp             -HHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHH
T ss_pred             -HHHHHHHhhCCEEEEEEecCCCccHHHHHHHHH
Confidence             122323332222345666555555666665543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.44  E-value=0.021  Score=56.08  Aligned_cols=28  Identities=25%  Similarity=0.292  Sum_probs=24.1

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+-.+|+|+|+.++|||||++.|.|.-
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3566789999999999999999998753

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=94.38  E-value=0.026  Score=59.96  Aligned_cols=54  Identities=20%  Similarity=0.179  Sum_probs=36.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      -|.|+|..++|||+|+|+|.+..  |.- .  . .|.|+-.....       +..+.+.|+||.|..
T Consensus       167 kI~ivG~~~vGKSsLl~~l~~~~--~~~-~--~-pT~~~~~~~~~-------~~~~~l~i~Dt~G~~  220 (329)
T 3o47_A          167 RILMVGLDAAGKTTILYKLKLGE--IVT-T--I-PTIGFNVETVE-------YKNISFTVWDVGGQD  220 (329)
T ss_dssp             EEEEEESTTSSHHHHHHHTCSSC--CEE-E--E-EETTEEEEEEE-------ETTEEEEEEECC---
T ss_pred             eEEEECCCCccHHHHHHHHhCCC--CCC-c--c-cccceEEEEEe-------cCcEEEEEEECCCCH
Confidence            58899999999999999999876  421 1  1 26665543321       234789999999953

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=94.31  E-value=1.5  Score=38.45  Aligned_cols=8  Identities=13%  Similarity=0.472  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 005055          593 EISDWKRK  600 (716)
Q Consensus       593 e~~e~~r~  600 (716)
                      ++..+.|+
T Consensus        45 Ei~sL~kk   52 (101)
T 3u1c_A           45 DIVQLEKQ   52 (101)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

>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=94.30  E-value=0.015  Score=61.47  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++|||||+|.|+|.
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHhccc
Confidence            7899999999999999999985

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=94.26  E-value=1  Score=41.21  Aligned_cols=88  Identities=15%  Similarity=0.225  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDS  589 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~  589 (716)
                      ..++..++-.+.+++.+++.++.+-..++..+.+.+.+|+..+.+++..+..+..                     +|..
T Consensus        35 k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~---------------------eL~~   93 (129)
T 3tnu_B           35 KHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEE---------------------ALQK   93 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------hHHH
Confidence            4567777777778888887777777666666666666666555554444444333                     3445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          590 LKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVL  622 (716)
Q Consensus       590 ~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l  622 (716)
                      ++.+.....+.|+.+++-+-    .|..+|+.+
T Consensus        94 ~r~e~~~ql~EYq~LlnvKl----~Ld~EIatY  122 (129)
T 3tnu_B           94 AKQDMARLLREYQELMNTKL----ALDVEIATY  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence            56666666778888777543    355556544

>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=94.16  E-value=0.12  Score=60.62  Aligned_cols=72  Identities=13%  Similarity=0.081  Sum_probs=41.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCC-----------cccceEEeeccccccc----cCCCCceeEEEE
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHR-----------PCTKGLWLWSAPLKRT----ALDGTEYNLLLL  133 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~-----------~~TkGIWmw~~p~~~~----~~~g~~~~vvlL  133 (716)
                      ..+..|+|+|..++|||+|+++|+.....|.-...+.           ..+.||=+-.......    ..++..+.+.|+
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            3466799999999999999999985432221100000           0123433322211110    023455889999


Q ss_pred             eCCCCcc
Q 005055          134 DSEGIDA  140 (716)
Q Consensus       134 DTEGl~~  140 (716)
                      ||+|..+
T Consensus        88 DTPG~~d   94 (704)
T 2rdo_7           88 DTPGHVD   94 (704)
T ss_pred             eCCCccc
Confidence            9999743

>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=94.10  E-value=0.023  Score=57.43  Aligned_cols=23  Identities=35%  Similarity=0.390  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|.|-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            79999999999999999999864

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=94.08  E-value=0.092  Score=58.01  Aligned_cols=26  Identities=27%  Similarity=0.174  Sum_probs=22.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +..-|+|+|...+|||+|+|+|++..
T Consensus        16 ~~~~i~iiG~~d~GKSTL~~~Ll~~~   41 (439)
T 3j2k_7           16 EHVNVVFIGHVDAGKSTIGGQIMYLT   41 (439)
T ss_pred             ceeEEEEEeCCCCCHHHHHHHHHHHc
Confidence            44468899999999999999997653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.03  E-value=0.02  Score=55.40  Aligned_cols=23  Identities=13%  Similarity=0.263  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|.|..
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            78999999999999999998753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=94.02  E-value=0.063  Score=61.99  Aligned_cols=27  Identities=30%  Similarity=0.297  Sum_probs=22.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+..-|+|+|...+|||+|+|+|++..
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~  191 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDL  191 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhc
Confidence            344457899999999999999999774

>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=94.01  E-value=0.082  Score=61.89  Aligned_cols=25  Identities=12%  Similarity=0.258  Sum_probs=22.4

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ..+..|+|+|..++|||+|+|+|+.
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~   34 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILY   34 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHH
Confidence            3577899999999999999999983

>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=94.00  E-value=0.023  Score=56.00  Aligned_cols=24  Identities=13%  Similarity=0.253  Sum_probs=21.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+|+|+||.++|||||++.|++..
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            378899999999999999999764

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=93.97  E-value=0.83  Score=41.91  Aligned_cols=88  Identities=17%  Similarity=0.190  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHH
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDS  589 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~  589 (716)
                      ..++..++-.+.+++.+++.++.+-..++..+.+.+.+|+..+.+++..+..+..                     +|..
T Consensus        37 k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~---------------------eL~~   95 (131)
T 3tnu_A           37 KSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEE---------------------QLAQ   95 (131)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHH
Confidence            5567777778888888887777777666666666666666555554444443333                     3445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          590 LKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVL  622 (716)
Q Consensus       590 ~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l  622 (716)
                      ++.+.....+.|+.+++-+-    .|..+|+.+
T Consensus        96 ~r~em~~ql~EYq~Ll~vKl----~Ld~EIatY  124 (131)
T 3tnu_A           96 LRCEMEQQNQEYKILLDVKT----RLEQEIATY  124 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence            55556666777777777533    355555543

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.86  E-value=0.026  Score=56.67  Aligned_cols=23  Identities=35%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>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=93.86  E-value=0.1  Score=56.97  Aligned_cols=27  Identities=19%  Similarity=0.270  Sum_probs=23.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ++..-|+|+|...+|||+|+|+|.|..
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~   32 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVW   32 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCC
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCc
Confidence            456679999999999999999999763

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=93.78  E-value=0.024  Score=55.67  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||||+|.|.|..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            68999999999999999999864

>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=93.75  E-value=0.03  Score=64.46  Aligned_cols=101  Identities=19%  Similarity=0.236  Sum_probs=52.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccc-cCCCcccceEEeeccc----cccccC-----CCCceeEEEEeCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVA-STHRPCTKGLWLWSAP----LKRTAL-----DGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g-~~~~~~TkGIWmw~~p----~~~~~~-----~g~~~~vvlLDTEGl~~~~  142 (716)
                      +|+|+|...+|||+|+|+|+|..  |.-+ ++.-..|-|......+    ......     +.....+.|+||+|..++.
T Consensus         7 ~V~IvGh~d~GKTTLl~~L~~~~--v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~   84 (594)
T 1g7s_A            7 IVSVLGHVDHGKTTLLDHIRGSA--VASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFT   84 (594)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH--HSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCT
T ss_pred             EEEEECCCCCcHHHHHHHHhccc--CccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHH
Confidence            68999999999999999999753  2110 0000123343321110    000000     0111258999999986543


Q ss_pred             cCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          143 QTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       143 ~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      .....     ++...=.-++||.....+..+.++.+..
T Consensus        85 ~~~~r-----~~~~aD~aILVvDa~~Gv~~qT~e~l~~  117 (594)
T 1g7s_A           85 TLRKR-----GGALADLAILIVDINEGFKPQTQEALNI  117 (594)
T ss_dssp             TSBCS-----SSBSCSEEEEEEETTTCCCHHHHHHHHH
T ss_pred             HHHHH-----HHhhCCEEEEEEECCCCccHhHHHHHHH
Confidence            22111     1111122357787776666776666543

>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=93.75  E-value=0.027  Score=62.85  Aligned_cols=39  Identities=18%  Similarity=0.143  Sum_probs=29.9

Q ss_pred             eeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           54 FRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        54 l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..++++.+..+.  ..+..-|+|+|....|||+|+|+|++.
T Consensus        28 ~~~~~~~~~~~~--~k~~~~i~iiG~vd~GKSTLi~~Ll~~   66 (467)
T 1r5b_A           28 NEVDQELLKDMY--GKEHVNIVFIGHVDAGKSTLGGNILFL   66 (467)
T ss_dssp             TTCCSTTHHHHS--CCEEEEEEEEECGGGTHHHHHHHHHHH
T ss_pred             cccCHHHHHhhc--CCCeeEEEEEECCCCCHHHHHHHHHHH
Confidence            445666665554  356677999999999999999999854

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=93.68  E-value=0.92  Score=50.15  Aligned_cols=58  Identities=10%  Similarity=0.148  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVL  605 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i  605 (716)
                      +.+.=.|+++.++++.+++.+++...++.+.-+..+.+.|........+....|.+.-
T Consensus        55 LdkqErDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S  112 (562)
T 3ghg_A           55 IDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVS  112 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTT
T ss_pred             HHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHH
Confidence            3344445556666666666666666666665555555555444444445544444443

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.67  E-value=0.031  Score=57.26  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.66  E-value=0.029  Score=56.96  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=23.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+ -+++|+|+.++||||||+.|+|-.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            46 899999999999999999999864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.63  E-value=0.025  Score=55.36  Aligned_cols=22  Identities=18%  Similarity=0.225  Sum_probs=20.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++|||||++.|+|.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            5899999999999999999875

>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=93.61  E-value=0.033  Score=56.03  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.59  E-value=0.071  Score=55.88  Aligned_cols=20  Identities=35%  Similarity=0.504  Sum_probs=19.1

Q ss_pred             EEEeeCCCCCChhHHHHHhh
Q 005055           73 VVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +++++|+.++|||||+|.|+
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999998

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.58  E-value=0.025  Score=55.30  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=22.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-.+|+|+|+.++|||||++.|.|.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3458999999999999999999875

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=93.56  E-value=0.14  Score=55.33  Aligned_cols=20  Identities=20%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHHhh
Q 005055           73 VVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .|+|+|....|||+|+|+|+
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~   42 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG   42 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            79999999999999999998

>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=93.55  E-value=0.034  Score=56.31  Aligned_cols=23  Identities=39%  Similarity=0.562  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|.-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>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=93.53  E-value=0.029  Score=56.01  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999999864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.51  E-value=0.035  Score=57.13  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>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=93.50  E-value=0.034  Score=57.36  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            79999999999999999999864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.48  E-value=0.036  Score=52.77  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      -+|+++|+.++|||||++.+++
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHcc
Confidence            4799999999999999999663

>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=93.45  E-value=0.036  Score=57.58  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++|||||++.|.|-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999999864

>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=93.44  E-value=0.056  Score=58.27  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            78999999999999999999863

>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=93.43  E-value=0.036  Score=56.15  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

>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=93.42  E-value=0.037  Score=56.16  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|-.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999999864

>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=93.39  E-value=0.037  Score=56.77  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.33  E-value=0.029  Score=55.71  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++||||||+.|+|.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999999985

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.29  E-value=0.039  Score=56.22  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>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=93.29  E-value=0.038  Score=52.91  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|+|+|+.++|||||++.|+|.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            36899999999999999999986

>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=93.28  E-value=0.067  Score=57.96  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            78999999999999999999864

>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=93.25  E-value=0.022  Score=64.10  Aligned_cols=92  Identities=14%  Similarity=0.224  Sum_probs=47.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHH
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIF  152 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IF  152 (716)
                      +|+|+|...+|||+|+|+|.+..  |..+.. ...|.-+-.+..+.     ++  ..+.|+||+|...+......     
T Consensus         6 ~V~IvGhvd~GKTTLl~~L~~~~--v~~~e~-~GIT~~i~~~~v~~-----~~--~~i~~iDTPGhe~f~~~~~~-----   70 (501)
T 1zo1_I            6 VVTIMGHVDHGKTSLLEYIRSTK--VASGEA-GGITQHIGAYHVET-----EN--GMITFLDTPGHAAFTSMRAR-----   70 (501)
T ss_dssp             CEEEEESTTSSSHHHHHHHHHHH--HSBTTB-CCCCCCSSCCCCCT-----TS--SCCCEECCCTTTCCTTSBCS-----
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC--CccccC-CCeeEeEEEEEEEE-----CC--EEEEEEECCCcHHHHHHHHH-----
Confidence            68999999999999999998642  332211 01111111111111     22  35778999997544321111     


Q ss_pred             HHhhhccceEEEccCCCCchHhhhhhH
Q 005055          153 SLAVLLSSMFIYNQMGGIDESAIDRLS  179 (716)
Q Consensus       153 aLa~LLSS~~IyN~~g~i~e~~l~~L~  179 (716)
                      .+...=.-++||.....+..+..+.+.
T Consensus        71 ~~~~aD~aILVVda~~g~~~qT~e~l~   97 (501)
T 1zo1_I           71 GAQATDIVVLVVAADDGVMPQTIEAIQ   97 (501)
T ss_dssp             SSBSCSSEEEEEETTTBSCTTTHHHHH
T ss_pred             HHhhCCEEEEEeecccCccHHHHHHHH
Confidence            001000125667655545555555553

>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=93.24  E-value=0.041  Score=56.24  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            79999999999999999999874

>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=93.23  E-value=0.041  Score=56.74  Aligned_cols=23  Identities=39%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|.|-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            78999999999999999999864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.19  E-value=0.028  Score=55.88  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=20.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|+|..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            68999999999999999999853

>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=93.19  E-value=0.041  Score=56.07  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|+|-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999999996

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=93.16  E-value=3.7  Score=35.90  Aligned_cols=29  Identities=7%  Similarity=0.117  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHhhHHhH
Q 005055          559 ADDYTSRINNLQGENISLREKSSSLSKTV  587 (716)
Q Consensus       559 ~e~~~~~~~~l~~k~~~le~~~~~~~~~l  587 (716)
                      .++...+++.|+.++..+++.+.....+|
T Consensus        39 ~~~~E~Ei~sL~kk~~~lE~eld~~ee~L   67 (101)
T 3u1c_A           39 SKQLEDDIVQLEKQLRVTEDSRDQVLEEL   67 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444333333

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.12  E-value=0.043  Score=56.17  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999999864

>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=93.10  E-value=0.15  Score=61.03  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=23.5

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ...+--|+|+|...+|||+|+|+|++.
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~   42 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQR   42 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHh
Confidence            346778999999999999999999864

>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=93.07  E-value=0.044  Score=56.47  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++||||||+.|+|-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999999986

>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=93.07  E-value=0.038  Score=53.42  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .|+|+|+.++|||||++.|+|.-
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.03  E-value=0.044  Score=56.62  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999864

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=93.00  E-value=0.038  Score=55.30  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|+|..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            78999999999999999999864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.99  E-value=0.046  Score=56.32  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|.|-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            79999999999999999999864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.95  E-value=0.047  Score=56.08  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|-.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            79999999999999999999863

>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=92.94  E-value=0.052  Score=59.90  Aligned_cols=30  Identities=27%  Similarity=0.301  Sum_probs=24.3

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGF   98 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF   98 (716)
                      .+..-|+|+|..++|||+|+|+|++...+|
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i   33 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFI   33 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCC
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCc
Confidence            355678999999999999999998653334

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.94  E-value=0.047  Score=56.70  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            78999999999999999999864

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=92.93  E-value=0.037  Score=51.82  Aligned_cols=37  Identities=24%  Similarity=0.284  Sum_probs=30.3

Q ss_pred             eCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           56 MDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        56 v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|.+++..|..+  +=.++.|+|+.++|||+|++.+.+.
T Consensus        23 ~n~~~~~~l~~~--~g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           23 ENAELVYVLRHK--HGQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CTHHHHHHCCCC--CCSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHhc--CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            477888888777  3346778999999999999999874

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=92.89  E-value=4.1  Score=35.48  Aligned_cols=16  Identities=13%  Similarity=0.077  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHhhhHHH
Q 005055          563 TSRINNLQGENISLRE  578 (716)
Q Consensus       563 ~~~~~~l~~k~~~le~  578 (716)
                      ..++..|+.++..+++
T Consensus        43 E~ei~sL~kKiq~lE~   58 (101)
T 3u59_A           43 EEEQQGLQKKLKGTED   58 (101)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=92.89  E-value=0.038  Score=63.57  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ..++.-|+|+|...+|||+|+|+|++
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~  199 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMF  199 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHH
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHH
Confidence            45777899999999999999999975

>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=92.85  E-value=0.069  Score=54.25  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.4

Q ss_pred             EEEeeCCC---------CCChhHHHHHhhCC
Q 005055           73 VVSVCGRA---------RQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~---------rtGKS~LlN~llg~   94 (716)
                      =|+|+|..         ++|||+|+|+|.+.
T Consensus        21 ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~   51 (255)
T 3c5h_A           21 NISVVGLSGTEKEKGQCGIGKSCLCNRFVRP   51 (255)
T ss_dssp             EEEEEESCCCTTTTTTCCCSHHHHHHHHHCC
T ss_pred             EEEEECCCccccccCCCCcCHHHHHHHHHhc
Confidence            37788888         99999999999984

>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=92.80  E-value=0.15  Score=55.52  Aligned_cols=24  Identities=17%  Similarity=0.159  Sum_probs=21.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.-|+|+|...+|||+|+|+|++.
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~   26 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKI   26 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhCh
Confidence            346899999999999999999874

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=92.73  E-value=0.7  Score=39.36  Aligned_cols=68  Identities=15%  Similarity=0.204  Sum_probs=48.0

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          580 SSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWK  651 (716)
Q Consensus       580 ~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~  651 (716)
                      -+.+.-++++++-...+++.+|+.-++-    .....+.|..|+.-+..+-=.-.+++.++++.++|+.--|
T Consensus        16 ~~~l~~e~dn~~~~~edfk~KyE~E~~~----R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~fLk   83 (86)
T 3swk_A           16 KARVEVERDNLAEDIMRLREKLQEEMLQ----REEAENTLQSFRQDVDNASLARLDLERKVESLQEEIAFLK   83 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344456777888889999999998775    3556777777877766666566677777777777776433

>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=92.70  E-value=0.043  Score=58.00  Aligned_cols=26  Identities=23%  Similarity=0.160  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-.||+|+|+.++|||||++.|.|.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            34568999999999999999999875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.66  E-value=0.044  Score=55.26  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=21.6

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.+|+|+|+.++|||||++.|.|.
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999999875

>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=92.61  E-value=0.21  Score=58.16  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=23.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+...|+|+|..++|||+|+|+|++.
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~   32 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYK   32 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHh
Confidence            45778999999999999999999953

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=92.54  E-value=11  Score=38.86  Aligned_cols=20  Identities=25%  Similarity=0.473  Sum_probs=8.1

Q ss_pred             hHHHHhhHHHHHHHHHHHHH
Q 005055          676 SKEMQQREDVLREEFSSTLA  695 (716)
Q Consensus       676 ~e~~q~~e~~~~~~~~~~~~  695 (716)
                      +++.+.+=.=+-++|..+|+
T Consensus       218 ~e~f~~~~~p~~e~~~~~l~  237 (273)
T 3s84_A          218 VEEFRRRVEPYGENFNKALV  237 (273)
T ss_dssp             HHHHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHhHhhHHHHHHHHH
Confidence            33333333333444444443

>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=92.53  E-value=0.16  Score=56.27  Aligned_cols=23  Identities=17%  Similarity=0.257  Sum_probs=20.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhh
Q 005055           70 PIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +-.||.|+|++++||||+++.|+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA  121 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLA  121 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHH
Confidence            35789999999999999999997

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=92.49  E-value=0.056  Score=57.01  Aligned_cols=28  Identities=32%  Similarity=0.564  Sum_probs=24.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSG   97 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~g   97 (716)
                      ++-|+.|+|+.++|||||||.|+|...|
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~~~   30 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQHG   30 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSCCC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhcCC
Confidence            6789999999999999999999976533

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.47  E-value=0.051  Score=55.84  Aligned_cols=33  Identities=24%  Similarity=0.378  Sum_probs=26.0

Q ss_pred             HHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           60 AVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        60 Al~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++-+. + .|=.+|+|+||.++||||||+.|+|.
T Consensus        16 vl~~i~-i-~~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           16 KVLELC-H-RKMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             HHHHGG-G-CSSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             HHHHHh-h-CCCCEEEEECCCCccHHHHHHHHHHh
Confidence            444444 3 34468999999999999999999874

>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=92.40  E-value=0.11  Score=57.64  Aligned_cols=29  Identities=28%  Similarity=0.306  Sum_probs=23.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGF   98 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF   98 (716)
                      +..-|+|+|....|||+|+|+|++...+|
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~   34 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGI   34 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCS
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCc
Confidence            44568899999999999999998753333

>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=92.38  E-value=0.048  Score=52.29  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++|||||++.|++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            7899999999999999999863

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=92.33  E-value=0.034  Score=54.34  Aligned_cols=23  Identities=26%  Similarity=0.550  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|.|+|+.++|||||++.|....
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            67889999999999999998654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=92.30  E-value=0.053  Score=52.39  Aligned_cols=23  Identities=13%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|.+..
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            78999999999999999998764

>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=92.27  E-value=0.1  Score=57.57  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=21.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +..+|+|+|++++||||+++.|++
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999999986

>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=92.20  E-value=0.067  Score=56.10  Aligned_cols=23  Identities=22%  Similarity=0.172  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      -.||+++|+.++||||+++.|++
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45888999999999999999984

>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=92.18  E-value=0.067  Score=57.66  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++|||||+|.|+|..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            68999999999999999999864

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=92.18  E-value=7.8  Score=36.44  Aligned_cols=26  Identities=12%  Similarity=-0.027  Sum_probs=10.4

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQA  640 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql  640 (716)
                      +......|+.++...+.++..++.|+
T Consensus       113 ~e~r~~~L~~ql~e~~~~l~~lq~ql  138 (154)
T 2ocy_A          113 IEILNKRLTEQLREKDTLLDTLTLQL  138 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333334444444444443

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=92.15  E-value=7.9  Score=36.46  Aligned_cols=88  Identities=14%  Similarity=0.162  Sum_probs=52.6

Q ss_pred             HHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 005055          568 NLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEV  647 (716)
Q Consensus       568 ~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~  647 (716)
                      +|+.....-.++......++..+.....+...||+.+=.+.    ..++..|..|+.++....++...+.+.|+++-.|+
T Consensus        60 sLE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv----~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el  135 (155)
T 2efr_A           60 SLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSV----TKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKV  135 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444444444444444445555555542222    23666677777777777788888888888888888


Q ss_pred             HHHHHHHHHHHH
Q 005055          648 EEWKRKYGVAVR  659 (716)
Q Consensus       648 ~~w~~kY~~~~~  659 (716)
                      .+...++.++-+
T Consensus       136 ~~~~~~~~~~~~  147 (155)
T 2efr_A          136 EELLSKNYHLEN  147 (155)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HhcccchHHHHH
Confidence            877777777664

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.13  E-value=0.07  Score=54.94  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|+|.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999999986

>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=92.10  E-value=0.06  Score=51.07  Aligned_cols=27  Identities=22%  Similarity=0.219  Sum_probs=22.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+=-||+++|+.++|||||++.|+|..
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            344589999999999999999998754

>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=92.06  E-value=0.054  Score=52.96  Aligned_cols=33  Identities=36%  Similarity=0.637  Sum_probs=24.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC-C--ccccccCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRS-S--GFQVASTHRP  106 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~-~--gF~~g~~~~~  106 (716)
                      |.|+||.++||++|++.|+... .  +|.+.+|+++
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~~~~~~~svs~TTR~   39 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRT   39 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTTEEECCCEECSC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCeEEEEEEeccC
Confidence            4589999999999999998653 3  3556666544

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=92.03  E-value=0.052  Score=54.01  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=15.4

Q ss_pred             EEEeeCCCCCChhHHHHHhh-CCC
Q 005055           73 VVSVCGRARQGKSFILNQLL-GRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll-g~~   95 (716)
                      +|+|+||.++|||||++.|. |..
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            79999999999999999999 764

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=91.99  E-value=6.3  Score=35.02  Aligned_cols=27  Identities=19%  Similarity=0.068  Sum_probs=17.3

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQAL  641 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~  641 (716)
                      ..+.++++++|+..+=||.+=|+..++
T Consensus        75 t~~SLeD~E~k~n~aiErnalLE~El~  101 (111)
T 2v66_B           75 TIVSLEDFEQRLNQAIERNAFLESELD  101 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666666654

>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=91.97  E-value=0.053  Score=57.20  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++|||||++.|+|--
T Consensus        81 e~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CEEEEECCCCchHHHHHHHHHcCC
Confidence            379999999999999999999863

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=91.95  E-value=0.11  Score=57.40  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhh
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .+..||+|+|+.++||||+...|+
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA  121 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLG  121 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            456789999999999999999998

>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=91.92  E-value=0.059  Score=56.80  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+|+|+||.++|||||++.|+|--
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhhc
Confidence            478999999999999999998753

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=91.91  E-value=5.9  Score=34.48  Aligned_cols=8  Identities=13%  Similarity=0.214  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 005055          594 ISDWKRKY  601 (716)
Q Consensus       594 ~~e~~r~y  601 (716)
                      +..++|++
T Consensus        46 i~sL~kKi   53 (101)
T 3u59_A           46 QQGLQKKL   53 (101)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

>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=91.90  E-value=0.093  Score=51.09  Aligned_cols=27  Identities=15%  Similarity=0.267  Sum_probs=23.5

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSS   96 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~   96 (716)
                      +..+|+|+|+.++|||||++.|.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~~   46 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHLP   46 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            446899999999999999999998743

>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=91.81  E-value=0.072  Score=55.69  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|+|..
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            78999999999999999999864

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=91.75  E-value=7.5  Score=35.36  Aligned_cols=110  Identities=14%  Similarity=0.161  Sum_probs=63.1

Q ss_pred             HHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 005055          569 LQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSE---IEVLKSRSTAAEARLAAAREQALSAQE  645 (716)
Q Consensus       569 l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~---i~~l~~r~~~~eerl~~~~~ql~~ak~  645 (716)
                      -..++..+++.+..+...+....+...++..++..++.....+...+++.   +++.+.++..+..+-..+++++.-+.+
T Consensus        11 ~e~E~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~   90 (129)
T 2fxo_A           11 REKEMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNK   90 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566777777777777777777777777777766544444444333   222333344444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 005055          646 EVEEWKRKYGVAVREAKAALEKAAIVQERTSKEM  679 (716)
Q Consensus       646 E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~  679 (716)
                      ..++--..-..+. ..|--+++.+.-+++-+++.
T Consensus        91 rleeeee~~~~L~-~~kkkle~e~~~Lk~~led~  123 (129)
T 2fxo_A           91 RLEDEEEMNAELT-AKKRKLEDECSELKRDIDDL  123 (129)
T ss_dssp             HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            4444444445555 56777777777777766654

>3etw_A Adhesin A; antiparallel helix-loop-helix, leucine chain, cell adhesin, cell adhesion; 2.00A {Fusobacterium nucleatum} PDB: 3ety_A 3etx_A 3etz_A 2gl2_A

Probab=91.71  E-value=4.1  Score=36.68  Aligned_cols=79  Identities=16%  Similarity=0.238  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 005055          554 DKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       554 dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      +.+...|....+.+.+......+++++..+..     .....-++..|.+++.+.++...+|..+|+..+..++-.| ++
T Consensus        31 ~eka~AE~A~~~La~~~~l~~~i~er~~~i~~-----~~~~~~yk~~y~~l~k~Y~~~~keLd~~ik~qekiIdnFE-~i  104 (119)
T 3etw_A           31 EERAQADAARQALAQNEQVYNELSQRAQRLQA-----EANTRFYKSQYQELASKYEDALKKLEAEMEQQKAVISDFE-KI  104 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HTTSCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----hhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
Confidence            33444555555556665555556666555443     1256678889999999999999999999998887777776 66


Q ss_pred             HHHHH
Q 005055          634 AAARE  638 (716)
Q Consensus       634 ~~~~~  638 (716)
                      .++++
T Consensus       105 k~lr~  109 (119)
T 3etw_A          105 QALRA  109 (119)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            66654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=91.70  E-value=0.059  Score=50.64  Aligned_cols=23  Identities=30%  Similarity=0.252  Sum_probs=20.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|.+..
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999998753

>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=91.66  E-value=0.064  Score=52.63  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=20.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      -+++|+|+.++|||||++.|+|
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999987

>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=91.65  E-value=0.065  Score=49.73  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQ   99 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~   99 (716)
                      +|.|+|+.+|||||+.+.|  ..-||.
T Consensus         3 ~I~l~G~~GsGKsT~a~~L--~~~g~~   27 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL--KERGAK   27 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH--HHTTCE
T ss_pred             EEEEECCCCCCHHHHHHHH--HHCCCc
Confidence            6899999999999999999  444554

>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=91.58  E-value=0.09  Score=52.87  Aligned_cols=22  Identities=14%  Similarity=0.240  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .-+|+|+|+.++|||||++.|.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999999

>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=91.57  E-value=0.17  Score=55.96  Aligned_cols=23  Identities=17%  Similarity=0.177  Sum_probs=20.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhh
Q 005055           70 PIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +-.||.++|++++||||+++.|+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA  118 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLA  118 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999998

>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=91.53  E-value=0.1  Score=50.70  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|+|+|+.+|||||+.+.|.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999987

>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=91.53  E-value=0.15  Score=55.48  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            78999999999999999999864

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=91.48  E-value=0.076  Score=51.63  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.+|+|+|+.++|||||++.|.+.
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            347899999999999999999865

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=91.34  E-value=0.061  Score=51.91  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-+|+|+|+.++|||+|++.|++.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            558899999999999999999975

>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=91.26  E-value=0.073  Score=55.86  Aligned_cols=26  Identities=23%  Similarity=0.195  Sum_probs=22.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-.+|+|+|+.++|||||++.|.|.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34468999999999999999999875

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=91.25  E-value=0.12  Score=56.91  Aligned_cols=41  Identities=27%  Similarity=0.377  Sum_probs=31.3

Q ss_pred             eeeCHHHHHHhhc-cCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           54 FRMDPEAVAALQL-VKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        54 l~v~~eAl~~L~~-i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +.+.++...+|.. +..|=.+|+|+||.++||||||+.|+|.
T Consensus       149 Lg~~~~~~~~L~~l~~~~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          149 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHhh
Confidence            4456665555543 3467779999999999999999999874

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=91.23  E-value=0.1  Score=53.01  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhh
Q 005055           70 PIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +-.+|+|+|+.++|||||++.|.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            33489999999999999999998

>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=91.18  E-value=0.099  Score=56.48  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+|+.++||||||+.|.|-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            78999999999999999999864

>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=91.13  E-value=0.1  Score=55.55  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||||.|+|.-
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999999863

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.12  E-value=0.1  Score=56.25  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            79999999999999999999864

>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=91.00  E-value=0.09  Score=56.59  Aligned_cols=26  Identities=38%  Similarity=0.503  Sum_probs=22.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|=.+|+|+||.++||||||+.|+|.
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            34458999999999999999999874

>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=90.92  E-value=0.098  Score=56.38  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            78999999999999999999963

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=90.91  E-value=0.085  Score=59.55  Aligned_cols=39  Identities=23%  Similarity=0.293  Sum_probs=30.1

Q ss_pred             eCHHHHHHhhc-cCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           56 MDPEAVAALQL-VKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        56 v~~eAl~~L~~-i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +.+++++.|.. +...- +|+|+|+.+||||||||.|+|.-
T Consensus       245 ~~~~~l~~l~~~v~~g~-~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          245 VPSGVLAYLWLAIEHKF-SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             SCHHHHHHHHHHHHTTC-CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCHHHHHHHHHHHhCCC-EEEEECCCCCCHHHHHHHHHhhC
Confidence            46788888764 33333 38999999999999999998753

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=90.89  E-value=0.13  Score=50.17  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-.+|+|+|+.++|||||++.|.+.
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44568999999999999999999864

>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=90.85  E-value=0.095  Score=51.53  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.+|||||+++.|.+.
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=90.80  E-value=0.11  Score=55.17  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=21.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ...||+|+|+.++|||||++.|.+.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4558999999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=90.78  E-value=0.11  Score=55.95  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            78999999999999999999864

>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=90.76  E-value=0.14  Score=49.77  Aligned_cols=28  Identities=25%  Similarity=0.139  Sum_probs=23.5

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..+=.+|+|+|+.++|||||++.|.+..
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445689999999999999999998753

>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=90.76  E-value=0.11  Score=56.19  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            78999999999999999999864

>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=90.66  E-value=0.12  Score=49.74  Aligned_cols=29  Identities=24%  Similarity=0.365  Sum_probs=24.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      ...+|+|+|+.+|||||+.+.|...  |+.+
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~--g~~~   35 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW--GYPV   35 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT--TCCE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC--CCEE
Confidence            3457999999999999999999876  6544

>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=90.57  E-value=0.11  Score=50.43  Aligned_cols=27  Identities=22%  Similarity=0.231  Sum_probs=22.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVA  101 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g  101 (716)
                      +|+|+|+.++||||+++.|.+ . |+.+.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~-g~~~i   29 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L-GAYVL   29 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T-TCEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C-CCEEE
Confidence            699999999999999999998 3 55443

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=90.36  E-value=0.11  Score=48.93  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=21.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.+|.|+|+.++|||||++.|.+.
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            357999999999999999998764

>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=90.31  E-value=0.11  Score=54.71  Aligned_cols=25  Identities=28%  Similarity=0.177  Sum_probs=21.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-.||+|+|+.++|||||++.|+|.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3458999999999999999999863

>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=90.18  E-value=0.15  Score=53.19  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=22.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-.+|+|+|+.++|||||++.|.+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45668999999999999999998865

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=90.12  E-value=0.1  Score=56.04  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||+|.|+|.-
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            68899999999999999999863

>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=90.08  E-value=0.1  Score=55.94  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            78999999999999999999863

>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=89.94  E-value=0.084  Score=50.80  Aligned_cols=31  Identities=23%  Similarity=0.495  Sum_probs=24.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC--CCcccc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR--SSGFQV  100 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~--~~gF~~  100 (716)
                      ++.||+|+|+.++|||||++.|++.  ..|+.+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v   35 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVREGWRV   35 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhcCCee
Confidence            3558999999999999999999864  334544

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=89.92  E-value=0.12  Score=54.20  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=21.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||+|+|+.++|||||++.|+|.
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            48999999999999999999875

>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=89.91  E-value=0.28  Score=60.29  Aligned_cols=26  Identities=19%  Similarity=0.265  Sum_probs=23.3

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+..-|+|+|....|||+|+|+|.+.
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~  319 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTV  319 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhh
Confidence            56778999999999999999999864

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=89.90  E-value=0.13  Score=50.33  Aligned_cols=41  Identities=12%  Similarity=0.240  Sum_probs=29.9

Q ss_pred             eeeCHHHHHHhhcc--CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           54 FRMDPEAVAALQLV--KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        54 l~v~~eAl~~L~~i--~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +.-|.+..+.+...  ...+.+|+|+|..++|||+|+|+|++.
T Consensus        11 l~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           11 LAENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HhhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            44455555555432  245678999999999999999999864

>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=89.89  E-value=0.12  Score=49.06  Aligned_cols=23  Identities=17%  Similarity=0.213  Sum_probs=20.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.++|+.|+|||+|++.+++.
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=89.75  E-value=0.069  Score=51.35  Aligned_cols=23  Identities=17%  Similarity=0.457  Sum_probs=21.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -+|+|+|+.++|||||++.|+|.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999875

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=89.73  E-value=0.21  Score=57.52  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=22.2

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +-.|+|+|+.++|||||||.|.|..
T Consensus        45 lp~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           45 LPAIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CCCEECCCCTTSCHHHHHHHHHSCC
T ss_pred             CCeEEEECCCCChHHHHHHHHhCCC
Confidence            3459999999999999999999973

>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=89.71  E-value=0.16  Score=47.19  Aligned_cols=22  Identities=18%  Similarity=0.078  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.++||||+.+.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999998744

>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=89.64  E-value=0.14  Score=55.43  Aligned_cols=26  Identities=23%  Similarity=0.461  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|=.+|+|+|+.++||||||+.|+|.
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34568999999999999999999874

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=89.61  E-value=0.16  Score=57.78  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=21.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -|++|+|+.++||||||+.|.|.
T Consensus        26 ei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           26 TILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            48999999999999999999985

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=89.61  E-value=13  Score=34.62  Aligned_cols=97  Identities=12%  Similarity=0.219  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHhhhHHHHHHhhHHh
Q 005055          510 GSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDK---KKLADDYTSRINNLQGENISLREKSSSLSKT  586 (716)
Q Consensus       510 ~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dl---k~~~e~~~~~~~~l~~k~~~le~~~~~~~~~  586 (716)
                      +....++...-..-+..++.|..++++......+-.+.|++.-..+   ....+....+....+.+|..|++.+...+..
T Consensus        37 eR~~k~lE~r~~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~dLeraeeRae~aE~k~~eLEeeL~~~~~n  116 (147)
T 2b9c_A           37 ERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNN  116 (147)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666777778889999999998888888888899875544   7778888888888999999999887776666


Q ss_pred             HHHHH---HHHHHHHHHHHHHHH
Q 005055          587 VDSLK---NEISDWKRKYDQVLT  606 (716)
Q Consensus       587 le~~k---~e~~e~~r~y~~~i~  606 (716)
                      |.+++   ...++..-.|++.|.
T Consensus       117 lKsLE~~eekas~rE~~yee~I~  139 (147)
T 2b9c_A          117 LKSLEDKVEELLSKNYHLENEVA  139 (147)
T ss_dssp             HHHHHHTTTTHHHHHHHHHHHHT
T ss_pred             HHhhHHhHHHHHHHHHHHHHHHH
Confidence            65544   445666666665543

>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=89.56  E-value=0.14  Score=51.11  Aligned_cols=25  Identities=24%  Similarity=0.167  Sum_probs=22.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +=.+|+|.|+.|+|||||++.|.|.
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3458999999999999999999876

>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=89.54  E-value=0.097  Score=56.26  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|+|-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            78999999999999999999863

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=89.33  E-value=0.16  Score=55.38  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++||||||+.|+|-.
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            78999999999999999999864

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=89.28  E-value=2.9  Score=34.81  Aligned_cols=50  Identities=12%  Similarity=0.108  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHH
Q 005055          549 DDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWK  598 (716)
Q Consensus       549 ee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~  598 (716)
                      =..|++|+-.++++.++..+++.+..+--++++++.++|+.-..|+.-+.
T Consensus        25 ~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~   74 (81)
T 3qh9_A           25 LQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLH   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHH
Confidence            34577778888888888888888888888888888888877776655443

>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=89.25  E-value=0.15  Score=54.28  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=22.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +=.||+|+|+.++|||||++.|+|.
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999864

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=88.93  E-value=5.2  Score=37.39  Aligned_cols=72  Identities=22%  Similarity=0.270  Sum_probs=47.3

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHHH
Q 005055          619 IEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSKEMQQREDVLREEFS  691 (716)
Q Consensus       619 i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~~  691 (716)
                      ...|++|...-++|+..++.||..|+.-+++=-+||+.+.++.. .++....-.+--.+.+..+=..|..++.
T Consensus        40 ~k~lE~r~~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~-~~E~dLeraeeRae~aE~k~~eLEeeL~  111 (147)
T 2b9c_A           40 MKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLV-IIESDLERAEERAELSEGKCAELEEELK  111 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566777788889999999999999999999999999874332 2333333333334444444444554444

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=88.81  E-value=14  Score=40.77  Aligned_cols=12  Identities=0%  Similarity=-0.238  Sum_probs=4.4

Q ss_pred             chHHHHHHHHHH
Q 005055          458 SIDNVVKVLDGL  469 (716)
Q Consensus       458 ~~~~~~~~l~~l  469 (716)
                      +...|...++.+
T Consensus       322 g~~eF~~Eve~L  333 (487)
T 3oja_A          322 GSETERLECERE  333 (487)
T ss_dssp             ---CHHHHHHHH
T ss_pred             cHHHHHHHHHHH
Confidence            445555544443

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=88.75  E-value=0.2  Score=56.93  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|.|.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999999985

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=88.71  E-value=5.9  Score=33.35  Aligned_cols=36  Identities=19%  Similarity=0.389  Sum_probs=18.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          584 SKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLK  623 (716)
Q Consensus       584 ~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~  623 (716)
                      ..+|..++.+.....+.|+.++|-+    -.+..+|+.++
T Consensus        39 E~eL~~~r~e~~~q~~EYq~LlnvK----~~Ld~EIatYR   74 (84)
T 1gk4_A           39 QDEIQNMKEEMARHLREYQDLLNVK----MALDIEIATYR   74 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HhhHHHHHHHH
Confidence            3344445555555566666666643    23445555444

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=88.65  E-value=8.1  Score=33.20  Aligned_cols=39  Identities=13%  Similarity=0.121  Sum_probs=22.0

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRK  653 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~k  653 (716)
                      |.+.|++|+..+..+...-+.+.-+++..+.+..+++.|
T Consensus        54 ye~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~k~K   92 (93)
T 3s4r_A           54 YEEEMRELRRQVDQLTNDKARVEVERDNLAEDIMRLREK   92 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455555555555555555555555666666666666554

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=88.59  E-value=0.2  Score=57.70  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|.|.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            7999999999999999999985

>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A

Probab=88.47  E-value=14  Score=40.38  Aligned_cols=102  Identities=16%  Similarity=0.161  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 005055          554 DKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARL  633 (716)
Q Consensus       554 dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl  633 (716)
                      +.+..++++.+.+..++...+....-...+.+.|....+...+....|.+..++       |+.+|+.++.++..-=.+|
T Consensus        62 dv~~rI~kLkn~L~~~s~s~~~s~~y~~~~~~~lk~~~~q~~dndn~~~e~S~e-------Le~ri~yIK~kVd~qi~~I  134 (491)
T 1m1j_A           62 NYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDENYGHVSTE-------LRRRIVTLKQRVATQVNRI  134 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhccchhHHHHHHHH-------HHHHHHHHHHHHHHHHHHH
Confidence            345556666666666777777777777777777777777777777777776655       7777887777755444777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 005055          634 AAAREQALSAQEEVEEWKRKYGVAVREAKAALEKAAIVQERTSK  677 (716)
Q Consensus       634 ~~~~~ql~~ak~E~~~w~~kY~~~~~~~Ka~leq~~~~~~~~~e  677 (716)
                      ..|+.-++....++.               +||..|.++.+.++
T Consensus       135 rvLq~~l~~q~skIQ---------------RLE~dI~~q~~~Cr  163 (491)
T 1m1j_A          135 KALQNSIQEQVVEMK---------------RLEVDIDIKIRACK  163 (491)
T ss_dssp             HHHHHHHHHHHHHHH---------------HHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHH---------------HHHHHHHHHHHHhc
Confidence            777777666666665               46666666655543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=88.35  E-value=9.6  Score=42.03  Aligned_cols=18  Identities=11%  Similarity=-0.103  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 005055          641 LSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       641 ~~ak~E~~~w~~kY~~~~  658 (716)
                      ......+++=+.+|+.++
T Consensus       459 ~~~~~~~~~~~~~~~~~~  476 (487)
T 3oja_A          459 GEADLALASANATLQELV  476 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHhcccHHHHHH
Confidence            333333343444444444

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.30  E-value=0.18  Score=54.23  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=21.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||+|+|+.++|||||++.|+|.
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHhh
Confidence            48999999999999999999874

>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=88.24  E-value=0.21  Score=48.87  Aligned_cols=22  Identities=27%  Similarity=0.382  Sum_probs=20.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|+|+|+.+|||||+++.|.+
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=88.14  E-value=0.25  Score=46.25  Aligned_cols=21  Identities=19%  Similarity=0.335  Sum_probs=19.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+.+|||||+.+.|..
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            689999999999999999986

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=88.09  E-value=0.2  Score=48.83  Aligned_cols=22  Identities=14%  Similarity=0.445  Sum_probs=20.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ++.|+|+.++|||+|++.|++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7889999999999999999854

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=88.04  E-value=0.23  Score=57.23  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +++|+|+.++||||||+.|.|.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            7999999999999999999985

>2p22_C Protein SRN2; endosome, trafficking complex, VPS23, VPS28, VPS37, MVB12; 2.70A {Saccharomyces cerevisiae} PDB: 2caz_C 2f66_C

Probab=88.03  E-value=2.4  Score=41.47  Aligned_cols=88  Identities=8%  Similarity=0.168  Sum_probs=54.1

Q ss_pred             HHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---H---HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 005055          564 SRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---L---TKQKAMEDQVCSEIEVLKSRSTAAEARLAAAR  637 (716)
Q Consensus       564 ~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i---~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~  637 (716)
                      +....+......+++..+.+..+++..+.=..+|..+|+++   |   -+..++.+.++..++       .+|+.+-++.
T Consensus        76 s~ae~ll~l~~~Le~~r~~l~~~l~~~~~L~~~~~~k~q~~~~~ls~~~sp~~L~~~L~~a~~-------e~eeeS~~l~  148 (192)
T 2p22_C           76 DQFKQLEENFEDLHEQKDKVQALLENARILESKYVASWQDYHSEFSKKYGDIALKKKLEQNTK-------KLDEESSQLE  148 (192)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSHHHHHHHHHHHHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHH-------HHHHHHHHHH
Confidence            33333334444566666666777777777777888888444   2   123455666777777       6666666666


Q ss_pred             HHHHHH--HHHHHHHHHHHHHHH
Q 005055          638 EQALSA--QEEVEEWKRKYGVAV  658 (716)
Q Consensus       638 ~ql~~a--k~E~~~w~~kY~~~~  658 (716)
                      +..-..  ..|..+|.++|-..=
T Consensus       149 ~~F~~~~~e~dv~~Fl~~y~~~R  171 (192)
T 2p22_C          149 TTTRSIDSADDLDQFIKNYLDIR  171 (192)
T ss_dssp             HSCSCCCCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCcccchHHHHHHHHHHHH
Confidence            664333  567888888886543

>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=87.96  E-value=0.17  Score=54.14  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=22.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ...++|+|+.++|||||++.|+|.-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999999863

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=87.83  E-value=0.26  Score=48.17  Aligned_cols=41  Identities=12%  Similarity=0.302  Sum_probs=29.2

Q ss_pred             eeeCHHHHHHhhcc--CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           54 FRMDPEAVAALQLV--KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        54 l~v~~eAl~~L~~i--~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +.-+++..+.+...  ..++.+|+|+|..++|||+|+|+|++.
T Consensus        19 ~~~~~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           19 LKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            44444444444432  245778999999999999999999864

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=87.74  E-value=18  Score=40.04  Aligned_cols=24  Identities=8%  Similarity=-0.097  Sum_probs=9.4

Q ss_pred             HHHHHhhhHHHHHHhhHHhHHHHH
Q 005055          568 NLQGENISLREKSSSLSKTVDSLK  591 (716)
Q Consensus       568 ~l~~k~~~le~~~~~~~~~le~~k  591 (716)
                      ..+.+..+++..+....++|+...
T Consensus       132 ~~Q~Qi~en~n~~~~~~~~~e~~~  155 (464)
T 1m1j_B          132 KTQKQRKDNDIILSEYNTEMELHY  155 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHHHHHHHHHHH
Confidence            333333344444444444444333

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=87.72  E-value=0.22  Score=48.18  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.++|||||++.|.+.
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999999754

>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=87.71  E-value=0.27  Score=47.23  Aligned_cols=28  Identities=11%  Similarity=0.191  Sum_probs=23.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      +|+|+|+.+|||||+.+.|...-.|+.+
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l~g~~~   33 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESIPANTI   33 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTSCGGGE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHCCCce
Confidence            6899999999999999999866444543

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=87.52  E-value=6.6  Score=34.45  Aligned_cols=25  Identities=8%  Similarity=0.008  Sum_probs=9.4

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQ  639 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~q  639 (716)
                      +..++.+++.++..+.+++..+..+
T Consensus        69 ~~~~l~~l~~~i~~l~~~i~~l~~~   93 (112)
T 1l8d_A           69 YHLDLNNSKNTLAKLIDRKSELERE   93 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344443333333333333333333

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=87.48  E-value=0.22  Score=55.88  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=21.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||+|+|+.|+|||||++.|+|.
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHHH
Confidence            48999999999999999999874

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=87.44  E-value=11  Score=32.53  Aligned_cols=51  Identities=8%  Similarity=0.199  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHH
Q 005055          548 YDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWK  598 (716)
Q Consensus       548 lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~  598 (716)
                      ++.....+..+-+.+-.+++.+..+....++...++.-+++.+..+...++
T Consensus        44 le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~~~~qLdkL~   94 (96)
T 3q8t_A           44 VQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQMQLDKLK   94 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344444455555555566666666666666666666666666665555444

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=87.40  E-value=0.27  Score=55.84  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=87.11  E-value=0.28  Score=55.60  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999964

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=87.10  E-value=0.28  Score=56.49  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999964

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=86.98  E-value=5.9  Score=33.55  Aligned_cols=35  Identities=11%  Similarity=0.276  Sum_probs=18.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLK  623 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~  623 (716)
                      .+|..++.+.....+.|+.++|-+    -.+..+|+.++
T Consensus        42 ~el~~~r~e~~~ql~EYq~LlnvK----~~Le~EIatYR   76 (86)
T 1x8y_A           42 REMAEMRARMQQQLDEYQELLDIK----LALDMEIHAYR   76 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HhhHHHHHHHH
Confidence            344444555555566666666643    23445555444

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=86.94  E-value=0.27  Score=56.23  Aligned_cols=23  Identities=30%  Similarity=0.366  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.|+|||||++.|+|--
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            78999999999999999999864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=86.92  E-value=0.25  Score=55.35  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=21.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -+++|+|+.++||||||+.|.|-
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcC
Confidence            79999999999999999999873

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=86.89  E-value=0.28  Score=56.09  Aligned_cols=24  Identities=33%  Similarity=0.365  Sum_probs=21.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.|+|||||++.|+|--
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999999863

>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=86.75  E-value=0.33  Score=45.86  Aligned_cols=21  Identities=24%  Similarity=0.224  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+.++||||+.+.|..
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999974

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=86.75  E-value=0.33  Score=46.42  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++||||+.+.|...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            5899999999999999999754

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=86.69  E-value=0.28  Score=56.27  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.|+|||||++.|+|--
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCc
Confidence            379999999999999999999864

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=86.54  E-value=6.6  Score=35.44  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          634 AAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       634 ~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      .++++..+.+.+-+.--|.+|..++
T Consensus        95 ~e~E~kAqa~Eerf~KLKe~yteLr  119 (120)
T 3i00_A           95 SEIERKAQANEQRYSKLKEKYSELV  119 (120)
T ss_dssp             -------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444444444444555566665554

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=86.46  E-value=0.32  Score=45.98  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.++||||+.+.|...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999999753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=86.33  E-value=0.33  Score=55.92  Aligned_cols=24  Identities=21%  Similarity=0.419  Sum_probs=21.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++||||||+.|+|..
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC
Confidence            479999999999999999999964

>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=86.28  E-value=0.54  Score=44.42  Aligned_cols=21  Identities=29%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +++|+|+.++|||+|+..|.+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            788999999999999999864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=86.26  E-value=0.21  Score=55.50  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=20.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|.-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            68999999999999999999863

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=86.25  E-value=0.26  Score=56.28  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.|+|||||++.|+|--
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            79999999999999999999864

>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=86.09  E-value=0.27  Score=50.69  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.++|||+|++.|+|.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            7899999999999999999875

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=85.98  E-value=16  Score=31.56  Aligned_cols=47  Identities=11%  Similarity=0.154  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH
Q 005055          558 LADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV  604 (716)
Q Consensus       558 ~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~  604 (716)
                      .+.++..+.+....++..|.+++..-...-..+++++.......+++
T Consensus        13 ~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeL   59 (97)
T 2eqb_B           13 DYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDL   59 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333344333333333344444444444444444

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=85.71  E-value=0.39  Score=48.73  Aligned_cols=23  Identities=17%  Similarity=0.135  Sum_probs=20.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.+||||||.+.|++.
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            37899999999999999999864

>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=85.65  E-value=0.33  Score=47.05  Aligned_cols=21  Identities=24%  Similarity=0.134  Sum_probs=20.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ++.|+|+.++|||+|+..|++
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999999997

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=85.64  E-value=0.32  Score=55.76  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++|||||++.|+|--
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCc
Confidence            379999999999999999999864

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=85.53  E-value=14  Score=31.00  Aligned_cols=56  Identities=16%  Similarity=0.321  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHH
Q 005055          552 INDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTK  607 (716)
Q Consensus       552 i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~  607 (716)
                      |.-|+.++++++.+++.|..+..++......+..+...++.|...|..+...++..
T Consensus        22 I~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLgk   77 (81)
T 2jee_A           22 ITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGR   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33445555666666666666666666666667777777777777787777777653

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=85.52  E-value=0.86  Score=48.42  Aligned_cols=58  Identities=22%  Similarity=0.181  Sum_probs=35.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |-++|..++|||.|++++.+..  |+-....-..|-|+-.-.  +      +..+.+-+.||.|.+.+
T Consensus         2 IvllGdsgvGKTSLl~~~~~~~--~~~~~~~~~~Tig~~~~~--v------~~~v~LqIWDTAGQErf   59 (331)
T 3r7w_B            2 VLLMGVRRCGKSSICKVVFHNM--QPLDTLYLESTSNPSLEH--F------STLIDLAVMELPGQLNY   59 (331)
T ss_dssp             EEEECSTTSSTTHHHHHHHSCC--CSGGGTTCCCCCSCCCEE--E------CSSSCEEEEECCSCSSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCCccceecCeeeeeeEE--E------ccEEEEEEEECCCchhc
Confidence            5678999999999999988653  211000112244443221  1      12367899999997543

>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=85.41  E-value=0.35  Score=47.69  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ++.|+|+.++|||+|+..|++.
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            7899999999999999999973

>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=85.40  E-value=0.19  Score=48.70  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|+|+.+|||||+++.|...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999999754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=85.36  E-value=0.43  Score=45.12  Aligned_cols=21  Identities=24%  Similarity=0.227  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.++|+.+|||||+.+.|..
T Consensus         6 ~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999974

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=85.32  E-value=0.44  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.241  Sum_probs=19.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|.|+|+.+|||||+.+.|..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=85.29  E-value=0.31  Score=51.55  Aligned_cols=63  Identities=21%  Similarity=0.240  Sum_probs=36.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeecc-ccccccCCCCceeEEEEeCCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSA-PLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~-p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +|.|+||+++|||+|...|+....|.-+.......-+|+-+... |-+. ..+|  +...|+|...+
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~QvYr~~~igTakp~~~-E~~g--vphhlid~~~~   68 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQVYRGMDIGTAKITAE-EMDG--VPHHLIDIKDP   68 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEECCGGGGBTTCCTTTTCCCHH-HHTT--CCEESSSCBCT
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceeecCcccceeeeeecCCCCCHH-HHcC--CCEEEeccCCh
Confidence            68899999999999999998665443233222223344433332 2111 1123  55677787654

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=85.22  E-value=0.36  Score=52.33  Aligned_cols=25  Identities=20%  Similarity=0.149  Sum_probs=21.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSS   96 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~   96 (716)
                      .+|+|+||.++|||||++.|.|...
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~~~~  194 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLELCG  194 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3789999999999999999997543

>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=85.17  E-value=0.37  Score=45.54  Aligned_cols=23  Identities=22%  Similarity=0.147  Sum_probs=20.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.++||||+++.|.+.
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36889999999999999999764

>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=85.14  E-value=0.46  Score=44.61  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=20.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|-|+|+.+|||||+.+.|...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6889999999999999999864

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=85.09  E-value=7.5  Score=33.43  Aligned_cols=54  Identities=15%  Similarity=0.206  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          561 DYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIE  620 (716)
Q Consensus       561 ~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~  620 (716)
                      .|..+...|+.+...|+.++..+..      +..+.+...|+..|.+.+...+.+...-+
T Consensus        20 syIdKVR~LEqqN~~Le~~i~~l~~------~~~~~~~~~ye~~i~~Lr~~i~~~~~ek~   73 (93)
T 3s4r_A           20 NLIDKVRFLEQQNKILLAELEQLKG------QGKSRLGDLYEEEMRELRRQVDQLTNDKA   73 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh------ccCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444433322      13455666777777775555555555555

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=84.93  E-value=0.45  Score=45.70  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|.|+++|||||+.+.|.+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            7999999999999999998653

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=84.88  E-value=0.46  Score=45.91  Aligned_cols=25  Identities=12%  Similarity=0.170  Sum_probs=21.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +..+|.|+|+.++||||+...|.+.
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~   48 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARK   48 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3447899999999999999999854

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=84.72  E-value=12  Score=41.06  Aligned_cols=15  Identities=27%  Similarity=0.456  Sum_probs=9.8

Q ss_pred             ChHHHHHHHHHHHHH
Q 005055          291 RPEFRAGLDALTKFV  305 (716)
Q Consensus       291 ~~eF~~~l~~l~~~i  305 (716)
                      +|++++.++.+.+.+
T Consensus       199 ~~~~~~al~~~~~l~  213 (471)
T 3mq9_A          199 NAGAKAGLTFLVDLI  213 (471)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            467777777666554

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=84.71  E-value=0.47  Score=44.90  Aligned_cols=22  Identities=18%  Similarity=0.243  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|.|+.+|||||+.+.|...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~   23 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEY   23 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999753

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=84.68  E-value=0.48  Score=45.54  Aligned_cols=23  Identities=22%  Similarity=0.123  Sum_probs=20.4

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|.|+.+|||||+.+.|...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            37999999999999999999753

>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=84.60  E-value=0.44  Score=45.19  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|.|+|+.++||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=84.49  E-value=0.46  Score=45.34  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=19.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.+|||||+.+.|...
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998753

>2b5u_A Colicin E3; high resolution colicin E3, ribosome inactivation, ribosome inhibitor, hydrolase; HET: CIT; 2.30A {Escherichia coli} SCOP: b.101.1.1 b.110.1.1 h.4.9.1 PDB: 1jch_A* 1ujw_B* 2ysu_B 1e44_B 2xfz_Y* 2xg1_Y*

Probab=84.45  E-value=53  Score=36.19  Aligned_cols=17  Identities=12%  Similarity=0.044  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 005055          632 RLAAAREQALSAQEEVE  648 (716)
Q Consensus       632 rl~~~~~ql~~ak~E~~  648 (716)
                      .+..++.+.+.++.|..
T Consensus       403 dv~~~~a~~d~~~~~~s  419 (551)
T 2b5u_A          403 DVNNKQAAFDAAAKEKS  419 (551)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHhhccc
Confidence            35555556666666655

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=84.35  E-value=22  Score=38.89  Aligned_cols=20  Identities=20%  Similarity=0.564  Sum_probs=9.3

Q ss_pred             chhHHHHHhhhcc-ceEEEcc
Q 005055          147 YSTQIFSLAVLLS-SMFIYNQ  166 (716)
Q Consensus       147 ~d~~IFaLa~LLS-S~~IyN~  166 (716)
                      +|.++|++-...+ ..++||.
T Consensus       113 ~dGk~YglP~~~~~~~l~YNk  133 (471)
T 3mq9_A          113 YNGKLIAYPIAVEALSLIYNK  133 (471)
T ss_dssp             ETTEECEEEEEEEECEEEEET
T ss_pred             ECCEEEEEeeeccceEEEEEh
Confidence            3444555443333 3456664

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=84.24  E-value=15  Score=32.56  Aligned_cols=77  Identities=13%  Similarity=0.159  Sum_probs=0.0

Q ss_pred             HHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          570 QGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEE  649 (716)
Q Consensus       570 ~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~  649 (716)
                      ..+...|......+.++|+....+..++...    ++.+   .++...++..|..++...|..|.+++..--.++.+..+
T Consensus         5 ~~~~~~lq~~~~ql~~qL~k~~~~r~~Le~~----w~~k---~E~~k~qV~~L~~~~q~sE~~L~~Lqq~fsq~q~~vq~   77 (112)
T 1x79_B            5 RDQVKKLQLMLRQANDQLEKTMKDKQELEDF----IKQS---SEDSSHQISALVLRAQASEILLEELQQGLSQAKRDVQE   77 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHH
Q 005055          650 WKRK  653 (716)
Q Consensus       650 w~~k  653 (716)
                      ...+
T Consensus        78 qL~~   81 (112)
T 1x79_B           78 QMAV   81 (112)
T ss_dssp             HHHH
T ss_pred             HHHH

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=84.03  E-value=0.49  Score=44.98  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|.|+|+.+|||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999999874

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=84.03  E-value=0.39  Score=49.16  Aligned_cols=21  Identities=29%  Similarity=0.319  Sum_probs=19.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ++.|+|+.++|||||+..|++
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            789999999999999999986

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=83.86  E-value=0.4  Score=51.33  Aligned_cols=36  Identities=17%  Similarity=0.165  Sum_probs=26.5

Q ss_pred             HHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           59 EAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        59 eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .|++-+..+.. =-+++|+|+.++||||||+.|+|..
T Consensus        60 ~ald~ll~i~~-Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           60 RAIDGLLTCGI-GQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             HHHHHHSCEET-TCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEeeeeecC-CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46666533321 1278999999999999999999874

>2efl_A Formin-binding protein 1; EFC domain, structural genomics, NPPSFA, national project on structural and functional analyses; 2.61A {Homo sapiens} SCOP: a.238.1.4

Probab=83.75  E-value=40  Score=34.17  Aligned_cols=35  Identities=14%  Similarity=0.060  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHhc
Q 005055          433 ADIRCSSAIQSMERKLRAACHSSDASIDNVVKVLDGLISEYET  475 (716)
Q Consensus       433 s~~~C~~~l~~le~~l~~~~~~~~~~~~~~~~~l~~ll~eY~~  475 (716)
                      +...|.++..-+.+|..-        -..|.+.+.++...|..
T Consensus        26 g~~~~~el~~f~~eRa~i--------E~eYak~L~kLa~~~~~   60 (305)
T 2efl_A           26 GIDILEKYIKFVKERTEI--------ELSYAKQLRNLSKKYQP   60 (305)
T ss_dssp             HHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcc
Confidence            344566665555555432        12466666677666643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=83.63  E-value=0.48  Score=44.61  Aligned_cols=22  Identities=23%  Similarity=0.209  Sum_probs=19.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+++|||||+...|...
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5889999999999999999753

>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=83.53  E-value=0.55  Score=47.29  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=21.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..+|+|+|+.+|||||+.+.|...
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999998753

>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=83.45  E-value=0.53  Score=44.43  Aligned_cols=22  Identities=27%  Similarity=0.305  Sum_probs=19.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|.|+|+.+|||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999864

>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=83.41  E-value=0.5  Score=44.00  Aligned_cols=22  Identities=14%  Similarity=0.131  Sum_probs=19.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.+|||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~   25 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARA   25 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998643

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=83.29  E-value=0.54  Score=45.40  Aligned_cols=22  Identities=27%  Similarity=0.252  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.+|||||+.+.|...
T Consensus        12 ~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           12 FIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6999999999999999999743

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=83.29  E-value=0.69  Score=44.50  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..+|.|+|+.+|||||+.+.|...
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            347999999999999999999754

>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=83.28  E-value=0.75  Score=44.78  Aligned_cols=39  Identities=15%  Similarity=0.365  Sum_probs=28.5

Q ss_pred             eCHHHHHHhhcc--CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           56 MDPEAVAALQLV--KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        56 v~~eAl~~L~~i--~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+.++++.|...  ..+-..|-|.|+.|||||+|+..+...
T Consensus        35 ~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           35 GNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            356777777643  223445678999999999999998753

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=83.19  E-value=0.44  Score=48.97  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=21.2

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      |-+ |.++||.|||||+|++.|+|.
T Consensus        44 ~~G-vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           44 PAG-VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             CSE-EEEESSTTSCHHHHHHHHHHH
T ss_pred             CCe-EEEECCCCCcHHHHHHHHHHH
Confidence            445 899999999999999999875

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=83.19  E-value=0.59  Score=47.16  Aligned_cols=21  Identities=43%  Similarity=0.422  Sum_probs=19.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|+|.|+.++||||+.+.|..
T Consensus        11 ~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999874

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=83.09  E-value=0.44  Score=52.66  Aligned_cols=36  Identities=22%  Similarity=0.212  Sum_probs=26.5

Q ss_pred             HHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           59 EAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        59 eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .|++-+..+. +=-+++|+|+.++||||||+.|+|..
T Consensus       146 ~vld~vl~i~-~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          146 RAINALLTVG-RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             eEEeeeEEec-CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            4666653332 11268999999999999999999864

>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=83.08  E-value=0.46  Score=47.60  Aligned_cols=24  Identities=29%  Similarity=0.545  Sum_probs=20.9

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      |-+ |.++|+.+||||+|++.|.+.
T Consensus        49 ~~g-~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           49 PKG-VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             CSE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCe-EEEECCCCCCHHHHHHHHHHH
Confidence            345 889999999999999999875

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=83.02  E-value=0.66  Score=45.19  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-.+|+|+|..+|||||+.+.|...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            35568999999999999999998753

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=82.96  E-value=45  Score=34.16  Aligned_cols=43  Identities=14%  Similarity=0.219  Sum_probs=20.5

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHhhH
Q 005055          542 SEYLKRYDDAINDKKKLADDYTSRI-NNLQGENISLREKSSSLS  584 (716)
Q Consensus       542 ~~~~k~lee~i~dlk~~~e~~~~~~-~~l~~k~~~le~~~~~~~  584 (716)
                      .+.+.++..++.+++..+.-|..+. +.+......+.+.+..+.
T Consensus       102 eelr~kl~~~veelk~~L~Py~eelr~k~~~~leeLr~~l~P~a  145 (273)
T 3s84_A          102 DELKAKIDQNVEELKGRLTPYADEFKVKIDQTVEELRRSLAPYA  145 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhhHHHHHHHhHhHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            4444455555555555555444443 334444444444444433

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=82.90  E-value=0.25  Score=53.46  Aligned_cols=20  Identities=30%  Similarity=0.461  Sum_probs=18.3

Q ss_pred             EEEeeCCCCCChhHHHHHhh
Q 005055           73 VVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~ll   92 (716)
                      +++|+|+.++|||+||+.|.
T Consensus        62 ~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            78999999999999998764

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=82.90  E-value=0.41  Score=57.94  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.|+||||||+.|.|..
T Consensus       701 ivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          701 RIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             EEEECSCCCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            79999999999999999999864

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=82.83  E-value=0.65  Score=44.14  Aligned_cols=25  Identities=28%  Similarity=0.184  Sum_probs=21.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-.+|.|+|+.++||||+++.|.+.
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            3457899999999999999998764

>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=82.65  E-value=0.59  Score=45.15  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.+|||||+.+.|...
T Consensus        11 ~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A           11 LIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999753

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=82.32  E-value=0.69  Score=43.72  Aligned_cols=22  Identities=23%  Similarity=0.191  Sum_probs=19.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.++|+.++||||+.+.|...
T Consensus         7 ~i~l~G~~GsGKst~a~~La~~   28 (185)
T 3trf_A            7 NIYLIGLMGAGKTSVGSQLAKL   28 (185)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5779999999999999999743

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=82.31  E-value=0.71  Score=42.80  Aligned_cols=21  Identities=24%  Similarity=0.150  Sum_probs=19.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+.+|||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=82.29  E-value=23  Score=30.89  Aligned_cols=10  Identities=20%  Similarity=0.132  Sum_probs=3.7

Q ss_pred             HHHHHHHHHH
Q 005055          628 AAEARLAAAR  637 (716)
Q Consensus       628 ~~eerl~~~~  637 (716)
                      .++.++..++
T Consensus        89 ~l~~~~~~l~   98 (112)
T 1l8d_A           89 ELERELRRID   98 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>3iox_A AGI/II, PA; alpha helix, PPII helix, supersandwich fold, surface adhesin WALL, peptidoglycan-anchor, cell adhesion; HET: PMS; 1.80A {Streptococcus mutans} PDB: 3ipk_A* 1jmm_A

Probab=82.24  E-value=32  Score=37.97  Aligned_cols=25  Identities=12%  Similarity=0.187  Sum_probs=12.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHH
Q 005055          542 SEYLKRYDDAINDKKKLADDYTSRI  566 (716)
Q Consensus       542 ~~~~k~lee~i~dlk~~~e~~~~~~  566 (716)
                      +..+..||..+.+++.+-..+.+++
T Consensus        26 a~aka~Ye~~~ae~~a~n~~i~aeN   50 (497)
T 3iox_A           26 ADAKAAYEAAVAANNAANAALTAEN   50 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            3334445555555555444444443

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=82.18  E-value=0.68  Score=44.99  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=18.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .|.|+|+.+|||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999964

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=81.97  E-value=0.14  Score=51.67  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=20.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+++|+||.++|||+||+.|.|.
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~   50 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTA   50 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            36789999999999999998863

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=81.88  E-value=0.75  Score=55.69  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +++|+|+.|+||||||+.|.|
T Consensus       463 ~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            789999999999999999994

>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=81.86  E-value=0.47  Score=50.06  Aligned_cols=26  Identities=19%  Similarity=0.285  Sum_probs=22.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+...+.++||.|+|||+|++.|+|.
T Consensus        49 ~~~~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           49 EVLDHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCCCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            45567889999999999999999875

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=81.79  E-value=0.53  Score=49.12  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=20.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .||+|+|+.++||||+++.|++
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=81.71  E-value=0.77  Score=42.75  Aligned_cols=25  Identities=20%  Similarity=0.130  Sum_probs=20.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+-+|.|.|..+|||||+...|...
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~   30 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLA   30 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHH
Confidence            5668999999999999999998643

>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=81.68  E-value=0.57  Score=44.30  Aligned_cols=21  Identities=29%  Similarity=0.256  Sum_probs=18.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+++|||||+...|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999864

>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=81.67  E-value=0.75  Score=43.87  Aligned_cols=28  Identities=21%  Similarity=0.382  Sum_probs=22.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      +|.|+|+.+|||||+.+.|....-|+.+
T Consensus        12 ~I~l~G~~GsGKSTv~~~La~~l~g~~~   39 (184)
T 1y63_A           12 NILITGTPGTGKTSMAEMIAAELDGFQH   39 (184)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            6899999999999999999765224433

>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=81.66  E-value=0.62  Score=43.94  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=18.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+.++||||+.+.|..
T Consensus        13 ~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           13 NILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHH
Confidence            567999999999999999873

>3cl3_D NF-kappa-B essential modulator; death effector domain, coiled-coil, coiled coil, cytoplasm, disease mutation, ectodermal dysplasia; 3.20A {Homo sapiens}

Probab=81.35  E-value=2.2  Score=38.50  Aligned_cols=83  Identities=12%  Similarity=0.183  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhH
Q 005055          505 LIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLS  584 (716)
Q Consensus       505 l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~  584 (716)
                      ..+.++.++..++.+|.+++.+...+.-.+++..+.       +.              ..+..|..+..+|+..+..-.
T Consensus        17 kL~~Ae~~k~~Leek~~~~e~~~~~~~~Elee~kqq-------~~--------------~~~d~L~lQ~esmeaalkmEr   75 (130)
T 3cl3_D           17 RLEAATKECQALEGRARAASEQARQLESEREALQQQ-------HS--------------VQVDQLRMQGQSVEAALRMER   75 (130)
T ss_dssp             ----------------------------------CT-------TT--------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-------HH--------------HHHHHHHHHHHHHHHHHHHHH
Confidence            344558888888888888777766665555443322       22              223333444444444444444


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHH
Q 005055          585 KTVDSLKNEISDWKRKYDQVLTKQ  608 (716)
Q Consensus       585 ~~le~~k~e~~e~~r~y~~~i~~~  608 (716)
                      ..-..-|.-.++++..|..++++.
T Consensus        76 ~~~~eEKrkLAqLQ~AY~~LfqeY   99 (130)
T 3cl3_D           76 QAASEEKRKLAQLQVAYHQLFQEY   99 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555666667777766553

>3r6n_A Desmoplakin; spectrin repeat, SH3 domain, cell adhesion, desmosome; 2.95A {Homo sapiens}

Probab=81.33  E-value=69  Score=35.20  Aligned_cols=128  Identities=11%  Similarity=0.118  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH---------------hhhHHHHHHhhHHhHHHHH
Q 005055          527 MKLLKKQLEDSERYKSEYLKRYDDAINDKKKLADDYTSRINNLQGE---------------NISLREKSSSLSKTVDSLK  591 (716)
Q Consensus       527 ~~~l~k~~e~~~~~~~~~~k~lee~i~dlk~~~e~~~~~~~~l~~k---------------~~~le~~~~~~~~~le~~k  591 (716)
                      +..|.+..+++........++++    .+.+=+.+...+..|+..+               +..+..+++.+..+|++-+
T Consensus        71 ~~~L~~~y~~L~~~a~~Rr~~Le----~L~qFl~d~~ee~~Wi~EKe~~~~s~d~gd~l~dv~~l~~khq~l~~EL~~~e  146 (450)
T 3r6n_A           71 IYQLEEEYENLLKASFERMDHLR----QLQNIIQATSREIMWINDCEEEELLYDWSDKNTNIAQKQEAFSIRMSQLEVKE  146 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHSCCCSTTCCCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhccccCcChhhHHHHHHHHHHHHHHHHHch
Confidence            34455555555555444444443    2333333344444444433               3344556666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHH
Q 005055          592 NEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARLAAAREQALSA---------QEEVEEWKRKYGVAV  658 (716)
Q Consensus       592 ~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl~~~~~ql~~a---------k~E~~~w~~kY~~~~  658 (716)
                      ..+.+...+=+.++...--..+.++..++.|+++=..+.+.+..-+..|+.+         =.|++.|.++=+.+|
T Consensus       147 ~~i~~v~~~G~~Li~~~Hpas~~I~~r~~~L~~~W~~L~~l~~~R~~~L~~a~~~~QF~~Da~EaesWL~eke~~l  222 (450)
T 3r6n_A          147 KELNKLKQESDQLVLNQHPASDKIEAYMDTLQTQWSWILQITKCIDVHLKENAAYFQFFEEAQSTEAYLKGLQDSI  222 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            6666666666666554333345566666666665444444444333334333         367888888766665

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=81.19  E-value=0.81  Score=47.15  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      ..+|+|+|+.+|||||+.+.|.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999998

>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=81.17  E-value=0.8  Score=44.07  Aligned_cols=21  Identities=24%  Similarity=0.170  Sum_probs=19.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|.|+|+.+|||||+.+.|..
T Consensus        22 ~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           22 RVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999999864

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=81.13  E-value=4.5  Score=37.16  Aligned_cols=87  Identities=11%  Similarity=0.074  Sum_probs=37.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005055          547 RYDDAINDKKKLADDYTSRINNLQGENISLREKSSSLSKTV-DSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSR  625 (716)
Q Consensus       547 ~lee~i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~l-e~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r  625 (716)
                      ..+..+..|.....+...+....+.....++.++..|+-.| +.+-+=           +-+-+.....+......|+.+
T Consensus        43 ~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElE~LTasLFeEAN~M-----------Va~ar~~~~~~e~r~~~L~~q  111 (135)
T 2e7s_A           43 DRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEANNL-----------VADARMEKYAIEILNKRLTEQ  111 (135)
T ss_dssp             THHHHHHTHHHHHHHTTSHHHHHHHTTHHHHHHHHHHHHHHHHHHHHH-----------HHHTTHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555666666666665555555 211111           222233334444555555555


Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q 005055          626 STAAEARLAAAREQALSAQ  644 (716)
Q Consensus       626 ~~~~eerl~~~~~ql~~ak  644 (716)
                      +...+..+.++++||...|
T Consensus       112 l~e~e~ll~~lq~QL~~LK  130 (135)
T 2e7s_A          112 LREKDMLLDTLTLQLKNLK  130 (135)
T ss_dssp             TTHHHHCC-----------
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555555555554433

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=81.12  E-value=0.57  Score=50.01  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=21.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .++.|+|+.++|||+|++.|++.
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999999864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=81.08  E-value=0.52  Score=48.96  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=16.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .||+|.|+.+|||||+.+.|..
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999874

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=81.05  E-value=0.72  Score=48.44  Aligned_cols=25  Identities=28%  Similarity=0.259  Sum_probs=22.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-.||+|+|++++||||++..|++.
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHH
Confidence            4468999999999999999999863

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=81.04  E-value=15  Score=31.16  Aligned_cols=37  Identities=5%  Similarity=0.057  Sum_probs=22.9

Q ss_pred             HHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHH
Q 005055          571 GENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTK  607 (716)
Q Consensus       571 ~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~  607 (716)
                      .++..+++++..+.+.++..++...++..++..+++.
T Consensus        14 eEm~~~eeel~~lke~l~k~e~~rkele~~~~~l~~e   50 (89)
T 3bas_A           14 EEMKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQ   50 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444566666666666666666666666666666555

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=80.83  E-value=0.62  Score=47.51  Aligned_cols=25  Identities=28%  Similarity=0.538  Sum_probs=21.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |-+ |.|+|+.+||||+|++.|.+..
T Consensus        73 ~~g-vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           73 PKG-VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCE-EEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCe-EEEECCCcChHHHHHHHHHHHc
Confidence            345 8899999999999999998753

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=80.81  E-value=3.8  Score=37.65  Aligned_cols=31  Identities=19%  Similarity=0.066  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHhhHHHHHHHH
Q 005055          660 EAKAALEKAAIVQERTSKEMQQREDVLREEF  690 (716)
Q Consensus       660 ~~Ka~leq~~~~~~~~~e~~q~~e~~~~~~~  690 (716)
                      ...+.+++.....++.+.+...+=+.++..+
T Consensus        96 ~~~~~~e~r~~~L~~ql~e~e~ll~~lq~QL  126 (135)
T 2e7s_A           96 MEKYAIEILNKRLTEQLREKDMLLDTLTLQL  126 (135)
T ss_dssp             HHHHHHHHHHHHHHHTTTHHHHCC-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677777777777777666555554443

>4h22_A Leucine-rich repeat flightless-interacting protei; nucleic acid sensor, transcription; 2.89A {Homo sapiens}

Probab=80.80  E-value=8.3  Score=33.66  Aligned_cols=72  Identities=11%  Similarity=0.225  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Q 005055          552 INDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV---LTKQKAMEDQVCSEIEVLK  623 (716)
Q Consensus       552 i~dlk~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~---i~~~k~~~~~~~~~i~~l~  623 (716)
                      +.++.+++-..+--+++|--+.+.+-=++.+|.+.|+..+....+++|.|.+-   +..+|...+.+..+++.++
T Consensus         4 L~EvEEKyrKAMVsnAQLDNEKsal~YqVdlLKD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk   78 (103)
T 4h22_A            4 LAEVEEKYKKAMVSNAQLDNEKTNFMYQVDTLKDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVK   78 (103)
T ss_dssp             ----CCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666667777777788888888888888888888888888888876   3444444455555555444

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=80.79  E-value=18  Score=31.71  Aligned_cols=87  Identities=18%  Similarity=0.275  Sum_probs=0.0

Q ss_pred             HHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHhhh
Q 005055          565 RINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQV------------------LTKQKAMEDQVCSEIEVLKSRS  626 (716)
Q Consensus       565 ~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~------------------i~~~k~~~~~~~~~i~~l~~r~  626 (716)
                      +...+..++..+..++..+..++...+.++.+...-.+++                  -.++......+..++.      
T Consensus         7 e~Q~~i~~~~~l~~~~~~l~~q~~~l~~~~~e~~~~~~eL~~l~~d~~vy~~iG~vfv~~~~~ea~~~L~~~~e------   80 (117)
T 2zqm_A            7 QVQAMLGQLESYQQQLQLVVQQKQKVQLELTEAKKALDEIESLPDDAVVYKTVGTLIVKTTKDKAVAELKEKIE------   80 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCTTCCEEEEETTEEEEECHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcHhHHHhhHHHhhccHHHHHHHHHHHHH------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          627 TAAEARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       627 ~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                       .++.++..+++++...+.++.+|+.++...+
T Consensus        81 -~ie~~i~~le~~~~~l~~~l~~lk~~l~~~~  111 (117)
T 2zqm_A           81 -TLEVRLNALERQEKKLNEKLKELTAQIQSAL  111 (117)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=80.73  E-value=0.76  Score=45.28  Aligned_cols=23  Identities=13%  Similarity=0.187  Sum_probs=20.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.+|||||+.+.|...
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999999743

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=80.55  E-value=0.65  Score=50.76  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -+|.|+||.++|||+|...|+..
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            47889999999999999999854

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=80.53  E-value=0.98  Score=41.94  Aligned_cols=21  Identities=33%  Similarity=0.623  Sum_probs=18.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .+..|+|+.++|||+||..|.
T Consensus        24 g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            477899999999999999974

>3tul_A Cell invasion protein SIPB; translocator, type three secretion system, coiled-coil, VIRU cell invasion; 2.79A {Salmonella enterica subsp}

Probab=80.51  E-value=36  Score=31.44  Aligned_cols=98  Identities=21%  Similarity=0.173  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH---
Q 005055          557 KLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDWKRKYDQVLTKQKAMEDQVCSEIEVLKSRSTAAEARL---  633 (716)
Q Consensus       557 ~~~e~~~~~~~~l~~k~~~le~~~~~~~~~le~~k~e~~e~~r~y~~~i~~~k~~~~~~~~~i~~l~~r~~~~eerl---  633 (716)
                      .-..++.++++.++.-+.+-.+-...+.....++=.|.++..+-|+..|++...    ..+.+-+++.|+..++.||   
T Consensus        20 ~Sl~qL~nrla~~~am~~sqqq~~eqlS~eFqtal~eAq~Atd~ye~ai~n~~s----A~~~~d~lekKl~~aq~kL~~L   95 (158)
T 3tul_A           20 VSLSQLESRLAVWQAMIESQKEMGIQVSKEFQTALGEAQEATDLYEASIKKTDT----AKSVYDAATKKLTQAQNKLQSL   95 (158)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHTC--CCTHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccch----HHHHHHHHHHHHHHHHHHHhcC
Confidence            345677888888888777777777778888888888999999999999888654    4445555666666666665   


Q ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          634 -------AAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       634 -------~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                             +.++...++++.|...-+++-+.+.
T Consensus        96 ~P~~P~Yak~~a~~~q~~~d~~~~~~~~~kA~  127 (158)
T 3tul_A           96 DPADPGYAQAEAAVEQAGKEATEAKEALDKAT  127 (158)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   4567778888888885555544444

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=80.48  E-value=0.68  Score=43.51  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=15.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+|+.+|||||+.+.|...
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            7899999999999999998643

>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=80.33  E-value=0.92  Score=45.99  Aligned_cols=23  Identities=22%  Similarity=0.185  Sum_probs=20.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+|.|+|+.||||||+.+.|...
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            47999999999999999998753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=80.18  E-value=0.94  Score=48.28  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=22.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSG   97 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~g   97 (716)
                      +|.|+||.++|||+|...|+..-+|
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~   66 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPL   66 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCC
Confidence            6889999999999999999977543

>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=80.14  E-value=0.89  Score=44.23  Aligned_cols=22  Identities=14%  Similarity=0.208  Sum_probs=19.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|.|+|+.+|||||+.+.|...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999643

---

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	716
d1f5na2	277	c.37.1.8 (A:7-283) Interferon-induced guanylate-bi	1e-79
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	4e-24

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 277

class: 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]

 Score =  253 bits (647), Expect = 1e-79
 Identities = 94/279 (33%), Positives = 156/279 (55%), Gaps = 12/279 (4%)

Query: 42  PIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVA 101
           P+ L+  +  G+   +PEA+  L  + +P+ VV++ G  R GKS+++N+L G+  GF + 
Sbjct: 4   PMCLIE-NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLG 62

Query: 102 STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ-TGTYSTQIFSLAVLLSS 160
           ST +  TKG+W+W  P          + L+LLD+EG+   ++      + IF+LAVLLSS
Sbjct: 63  STVQSHTKGIWMWCVPHP----KKPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSS 118

Query: 161 MFIYNQMGGIDESAIDRLSLVTQMTKHIRIRAS-----GGKTTPSELGQFSPIFVWLLRD 215
            F+YN +G I++ A+D+L  VT++T  IR ++S           ++   F P FVW LRD
Sbjct: 119 TFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDFVWTLRD 178

Query: 216 FYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSN 275
           F LDL  D + +TP +YL  +L+  +G+ +     N  R  IR  FP ++CF   RP+  
Sbjct: 179 FSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPVHR 238

Query: 276 ENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV 314
              L +L+++  + L PEF   +     ++F  ++ K +
Sbjct: 239 RK-LAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTL 276

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  100 bits (251), Expect = 4e-24
 Identities = 58/303 (19%), Positives = 119/303 (39%), Gaps = 21/303 (6%)

Query: 315 GATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDR-- 372
           G   + GP L  +  +Y++AI++G +P + ++  ++ + E   A   A   Y     +  
Sbjct: 1   GGIQVNGPRLESLVLTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKV 60

Query: 373 SKPPEEVA-LGEAHEAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYM 431
             P E +  L + H  + ++A+ V+             ++  L     K  +D  K    
Sbjct: 61  QLPTESLQELLDLHRDSEREAIEVFI--RSSFKDVDHLFQKELAAQLEKKRDDFCKQNQE 118

Query: 432 EADIRCSSAIQ----SMERKLRAACHSSDASIDNVVKVLDGLISEYETSCHGPGKWQKLA 487
            +  RCS  +Q     +E +++A  +S        V+ L  L  +Y        + +++ 
Sbjct: 119 ASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEIL 178

Query: 488 TFLQQSSEGPILDL------VKRLIDQIGSERS---SLMLKYRSIEDNMKLLKKQLEDSE 538
               +S E     +      +     +I  ER    S     + + +  +  ++ +E  E
Sbjct: 179 QTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKE 238

Query: 539 RYKSEYLKRYDDAI-NDKKKLADDYTSRINNLQGENISLREKSSSLSKTVDSLKNEISDW 597
           R   E+LK+  + + ND+ +L  +    +     E   L ++     K    +KNEI D 
Sbjct: 239 RSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE--GFQKESRIMKNEIQDL 296

Query: 598 KRK 600
           + K
Sbjct: 297 QTK 299

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	716
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	100.0
d1f5na1	300	Interferon-induced guanylate-binding protein 1 (GB	99.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.06
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.94
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	97.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	97.67
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.56
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.54
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.49
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.45
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.43
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.35
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.35
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	97.34
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.32
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.22
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.19
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.1
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.07
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.94
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.73
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.65
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.56
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	96.52
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	96.48
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.47
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.45
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.45
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.34
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.32
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.27
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	96.24
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.23
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.22
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.22
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.15
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.15
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.15
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	96.13
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.1
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.09
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.08
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.04
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.03
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.98
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.97
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.95
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.88
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.88
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.76
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.76
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.74
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.7
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.68
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.67
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.64
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.59
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	95.56
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.39
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.39
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.37
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.34
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.33
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.32
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.23
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.15
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	95.13
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.02
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.95
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.91
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.87
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.84
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.81
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.78
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	94.72
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.5
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	94.43
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.32
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.3
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.26
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.09
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	94.06
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.99
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	93.9
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.87
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.77
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.76
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	93.61
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.53
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.51
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.49
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.47
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.38
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.38
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	93.3
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.26
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	93.21
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.19
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.18
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.15
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	93.13
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.11
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	92.99
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.83
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.79
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.78
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.78
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.66
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	92.29
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.27
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	92.27
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	92.2
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	92.19
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	92.04
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	91.33
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	91.25
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.21
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	91.19
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	91.1
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	90.34
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	90.33
d2qy9a2	211	GTPase domain of the signal recognition particle r	90.28
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	90.13
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	90.02
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	89.97
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	89.75
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	89.61
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	89.35
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	89.29
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.29
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	89.27
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	89.18
d1j8yf2	211	GTPase domain of the signal sequence recognition p	89.0
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	88.99
d1ls1a2	207	GTPase domain of the signal sequence recognition p	88.44
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	88.32
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	88.25
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	88.06
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.47
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	87.46
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	86.87
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	86.74
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	86.7
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	86.45
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	86.35
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	86.34
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	86.03
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	85.77
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	85.73
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	85.34
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	85.04
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	84.85
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	84.81
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	84.72
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	84.66
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	84.65
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	84.28
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	83.34
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	83.33
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	82.77
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	82.74
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.33
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	81.92
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	81.87
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	81.69
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	81.09
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	80.7
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	80.69
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	80.05

>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=100.00  E-value=2.3e-63  Score=520.61  Aligned_cols=270  Identities=35%  Similarity=0.678  Sum_probs=247.2

Q ss_pred             CCCeeEEEeCCCCceeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccc
Q 005055           40 ARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLK  119 (716)
Q Consensus        40 ~~pi~LI~~d~~~~l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~  119 (716)
                      +.|||||+ +++|+|.+++||+++|+.+++||+||||+|++|||||||||+|+|...||.||+++++||+|||||+.|++
T Consensus         2 ~~p~~li~-~~~~~l~~~~e~l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~   80 (277)
T d1f5na2           2 TGPMCLIE-NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHP   80 (277)
T ss_dssp             CSCEEEEE-EETTEEEECHHHHHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECS
T ss_pred             CCCeEEEE-cCCCeEEECHHHHHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeecc
Confidence            57999998 55799999999999999999999999999999999999999999999999999999999999999999985


Q ss_pred             cccCCCCceeEEEEeCCCCccccc-CCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHHHHHHHHHHHhcC----
Q 005055          120 RTALDGTEYNLLLLDSEGIDAYDQ-TGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASG----  194 (716)
Q Consensus       120 ~~~~~g~~~~vvlLDTEGl~~~~~-~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~el~~~i~~k~~~----  194 (716)
                          ++.++.|+||||||+++.+. +.++|.+||+|++||||++|||+++.|++.++++|+++++++..+..+.+.    
T Consensus        81 ----~~~~~~~~~lDteG~~~~~~~~~~~~~~i~~l~~llSs~~i~N~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~  156 (277)
T d1f5na2          81 ----KKPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENE  156 (277)
T ss_dssp             ----SSTTCEEEEEEECCBCCGGGCCCTTHHHHHHHHHHHCSEEEEEEESCSSHHHHHTTHHHHTHHHHCBSCCC-----
T ss_pred             ----CCCCceEEEEecccccccccccchhHHHHHHHHHHHhCEEEEeccccCcHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence                46678999999999988775 567899999999999999999999999999999999999999998776541    


Q ss_pred             -CCCCCCcccccCCeEEEEeecccccccccCccCChHHHHHHhhccccCCChhhHhhhHHHHHHHhhCCCCeEEeecCCC
Q 005055          195 -GKTTPSELGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPL  273 (716)
Q Consensus       195 -~~~~~~e~~~~~P~f~wlvRDf~l~l~~~g~~~t~~eyLe~~L~~~~g~~~~~~~~n~iR~~i~~~F~~~~cf~l~~P~  273 (716)
                       +..+..++..+||.|+|+||||++++..+|..+|+++||+++|+..++.+.+++..|.+|++|++||++++||+||||+
T Consensus       157 ~~~~~~~~~~~~~p~l~~vvRD~~~~~~~~~~~~t~~eyLe~~l~~~~~~~~~~~~~N~~R~~i~~~F~dv~cf~Lp~P~  236 (277)
T d1f5na2         157 NEVEDSADFVSFFPDFVWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPV  236 (277)
T ss_dssp             --CCGGGGHHHHCCEEEEEEETCCCCCCCSSSCCCHHHHHHHHTCCCCCCSHHHHHHHHHHHHHHHHCSCEEEEECCCCS
T ss_pred             cccccchhhcccCCceEEEeecccccccccCCcccHHHHHHHHHhcccCchhhhHhhhhHHHHHHHhcCCCeEEeCCCCc
Confidence             1223345667899999999999999877889999999999999999999899999999999999999999999999998


Q ss_pred             CChhhhhcccCCCCCCCChHHHHHHHHHHHHHhccCCccccC
Q 005055          274 SNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQVG  315 (716)
Q Consensus       274 ~~~~~l~~l~~~~~~~L~~eF~~~l~~l~~~i~~~~~pK~~~  315 (716)
                      ..+ .+++++.++.++|+|+|+++++.||++|+++++||+++
T Consensus       237 ~~~-~l~~l~~~~~~~L~~~F~~~v~~L~k~I~~~~~~K~ln  277 (277)
T d1f5na2         237 HRR-KLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLS  277 (277)
T ss_dssp             CGG-GGGGGGGSCGGGSCHHHHHHHHHHHHHHHHHCCCCEET
T ss_pred             chh-hhchhhcCCccccCHHHHHHHHHHHHHHhccCCCcccC
Confidence            654 58999999999999999999999999999999999874

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=4.5e-29  Score=260.31  Aligned_cols=245  Identities=20%  Similarity=0.281  Sum_probs=212.3

Q ss_pred             CCcccchhhHHHHHHHHHHHHhcCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcccC--CCC-ChHHHHHHHHHHHHH
Q 005055          315 GATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRS--KPP-EEVALGEAHEAAVQK  391 (716)
Q Consensus       315 ~g~~ltG~~l~~l~~~yv~ain~g~vP~i~s~~~~~~e~e~~~a~~~A~~~Y~~~m~~~--~p~-~e~eL~~~H~~~~~~  391 (716)
                      ||.+|||++|+.|++.||+|||+|.||||.|+|.++++++|.+|++.|+..|...|+..  .|+ +.++|...|..+..+
T Consensus         1 gg~~~~g~~l~~l~~~yv~ain~g~~P~i~~~~~~~~~~e~~~a~e~a~~~Y~~~m~~~~~~~~~~~eel~~~h~~~~~~   80 (300)
T d1f5na1           1 GGIQVNGPRLESLVLTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLHRDSERE   80 (300)
T ss_dssp             TTEECBHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSCSSHHHHHHHHHHHHHH
T ss_pred             CCceeeHHHHHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999764  355 458899999999999


Q ss_pred             HHHHhhhccCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhhccCCCCchHHHHHHHH
Q 005055          392 ALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDHKKNVYMEADIRCSSAIQS----MERKLRAACHSSDASIDNVVKVLD  467 (716)
Q Consensus       392 Al~~F~~~s~g~~~~~~~~~~~L~~~l~~~~e~~~~~n~~~s~~~C~~~l~~----le~~l~~~~~~~~~~~~~~~~~l~  467 (716)
                      |+.+|...+||  +....|.++|...+.+.+.+|++.|...|...|..++..    ++.++.++.+..+++|+.+...++
T Consensus        81 a~~~f~~~~~~--~~~~~~~~~L~~~l~~~~~~~~~~Ne~~s~~~c~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  158 (300)
T d1f5na1          81 AIEVFIRSSFK--DVDHLFQKELAAQLEKKRDDFCKQNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQ  158 (300)
T ss_dssp             HHHHHHHHCCC--CGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSTTHHHHHHHHHH
T ss_pred             HHHHHHHhcch--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCchHHHHHHHHH
Confidence            99999999998  445789999999999999999999999999999998865    777788888999999999999999


Q ss_pred             HHHHHHhccc-CCCchhHHHHHHHh--hhccchHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHH
Q 005055          468 GLISEYETSC-HGPGKWQKLATFLQ--QSSEGPILDLVKRLIDQIGSERSSLMLKYRSIEDNMKLLKKQLEDSERYKSEY  544 (716)
Q Consensus       468 ~ll~eY~~~~-~GP~K~~~L~~FLq--~~~~~~il~~~k~l~~~i~~e~~~l~~k~~s~e~e~~~l~k~~e~~~~~~~~~  544 (716)
                      .+...|+..+ .++.....+..|++  ....+.+.+.+..+... ..+....+.+....+.....+++.....++.++..
T Consensus       159 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~e~~  237 (300)
T d1f5na1         159 DLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEK-EKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQK  237 (300)
T ss_dssp             HHHHHHHHSSCCCTTHHHHHHHHHHHTHHHHHHHHHHCSSSCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999987 44555566777776  33445666666555555 66777778888888999999999999999999999


Q ss_pred             HHhHHHHHHHHHHHHHHH
Q 005055          545 LKRYDDAINDKKKLADDY  562 (716)
Q Consensus       545 ~k~lee~i~dlk~~~e~~  562 (716)
                      .+++++.+.+++++++.-
T Consensus       238 ~~~~ee~~~~l~~~~e~e  255 (300)
T d1f5na1         238 ERSYQEHLKQLTEKMEND  255 (300)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999988887766553

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=98.06  E-value=9.4e-06  Score=81.32  Aligned_cols=109  Identities=15%  Similarity=0.169  Sum_probs=61.7

Q ss_pred             HHhhccC-CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc----eEEeeccccccccCCCCceeEEEEeCC
Q 005055           62 AALQLVK-EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK----GLWLWSAPLKRTALDGTEYNLLLLDSE  136 (716)
Q Consensus        62 ~~L~~i~-~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk----GIWmw~~p~~~~~~~g~~~~vvlLDTE  136 (716)
                      ..+...+ .++. |.++|..++|||+|+|.|+|.. -|.+++ ..++|+    +.+.|         +|  ..++|+||+
T Consensus        23 ~~l~~~~~~~l~-I~LvG~tg~GKSSliN~ilg~~-~~~vs~-~~~~T~~~~~~~~~~---------~g--~~i~viDTP   88 (257)
T d1h65a_          23 GNLKQEDVNSLT-ILVMGKGGVGKSSTVNSIIGER-VVSISP-FQSEGPRPVMVSRSR---------AG--FTLNIIDTP   88 (257)
T ss_dssp             HHHHHTTCCEEE-EEEEESTTSSHHHHHHHHHTSC-CSCCCS-SSCCCSSCEEEEEEE---------TT--EEEEEEECC
T ss_pred             HHHhhcCCCCcE-EEEECCCCCcHHHHHHHHhCCC-ceeecC-CCCcceeEEEEEEEe---------cc--EEEEEEeee
Confidence            3344333 4665 6699999999999999999975 355543 234444    44433         23  568999999


Q ss_pred             CCcccccCCcc-hhHHHHHhh-hccc--eEEEcc-CCCCchHhhhhhHHHHHH
Q 005055          137 GIDAYDQTGTY-STQIFSLAV-LLSS--MFIYNQ-MGGIDESAIDRLSLVTQM  184 (716)
Q Consensus       137 Gl~~~~~~~~~-d~~IFaLa~-LLSS--~~IyN~-~g~i~e~~l~~L~~v~el  184 (716)
                      |+.+.+..... ...+..... ---.  +++.+. ...+++.+...+..+.++
T Consensus        89 Gl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~  141 (257)
T d1h65a_          89 GLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDS  141 (257)
T ss_dssp             CSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHH
T ss_pred             cccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHH
Confidence            99654332211 112221110 0011  234444 335777777766655444

>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=97.94  E-value=5.8e-06  Score=88.28  Aligned_cols=98  Identities=21%  Similarity=0.244  Sum_probs=60.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCC---ccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSS---GFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTG  145 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~---gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~  145 (716)
                      .|+. |+|+|.+++|||+|+|.|+|...   |. ...++.++|..+..|..|      ++  ..++|+||+|++....+ 
T Consensus        55 ~~l~-Iai~G~~n~GKSSLiNaL~G~~~~~~~~-~~~g~~~tT~~~~~~~~~------~~--~~~~l~DtPG~~~~~~~-  123 (400)
T d1tq4a_          55 SVLN-VAVTGETGSGKSSFINTLRGIGNEEEGA-AKTGVVEVTMERHPYKHP------NI--PNVVFWDLPGIGSTNFP-  123 (400)
T ss_dssp             CCEE-EEEEECTTSSHHHHHHHHHTCCTTSTTS-CCCCC----CCCEEEECS------SC--TTEEEEECCCGGGSSCC-
T ss_pred             CCcE-EEEECCCCCCHHHHHHHHhCCCcCCCcc-CCCCCCCCceeeeeeecc------CC--CeEEEEeCCCccccccc-
Confidence            4665 79999999999999999999642   21 122345677766665433      22  24788999999754332 


Q ss_pred             cchhHHHHHhhhccceEEEccCCCCchHhhhhh
Q 005055          146 TYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       146 ~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                       .+..+--....-..++|+=+.+.+.+.+++-+
T Consensus       124 -~~~~~~~~~~~~~d~~l~~~~~~~~~~d~~l~  155 (400)
T d1tq4a_         124 -PDTYLEKMKFYEYDFFIIISATRFKKNDIDIA  155 (400)
T ss_dssp             -HHHHHHHTTGGGCSEEEEEESSCCCHHHHHHH
T ss_pred             -HHHHHHHhhhhcceEEEEecCCCCCHHHHHHH
Confidence             22222222333456677777778887776544

>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=97.91  E-value=1.9e-05  Score=73.79  Aligned_cols=59  Identities=27%  Similarity=0.477  Sum_probs=41.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccc---cCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVA---STHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g---~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..+.|+|+|..++|||+|+|+|+|... ..++   .++..+..+++.+.           +..+.++||+|+..
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~-~~~~~~~~tt~~~~~~~~~~~-----------~~~~~~~DtpG~~~   65 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKV-APISPRPQTTRKRLRGILTEG-----------RRQIVFVDTPGLHK   65 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCC-SCCCSSSCCCCSCEEEEEEET-----------TEEEEEEECCCCCC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCc-eeecccCCcccccccceeeee-----------eeeeeecccccccc
Confidence            345899999999999999999999752 1111   23334445555442           25789999999853

>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=97.67  E-value=4.1e-05  Score=71.40  Aligned_cols=55  Identities=27%  Similarity=0.255  Sum_probs=38.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|.+++|||+|+|+|.|..  ..+++   +....|.|+|.+..          ...+.++||+|+..
T Consensus         4 VaivG~~nvGKSTLin~L~~~~--~~~~~~~~~t~~~~~~~~~~~~----------~~~~~~~DtpG~~~   61 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRAH--PKIAPYPFTTLSPNLGVVEVSE----------EERFTLADIPGIIE   61 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSSC--CEECCCTTCSSCCEEEEEECSS----------SCEEEEEECCCCCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--CceeccCCCceeeeeceeeecC----------CCeEEEcCCCeeec
Confidence            8999999999999999999875  23322   12234556555421          24578899999853

>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=97.56  E-value=2.6e-05  Score=73.05  Aligned_cols=55  Identities=24%  Similarity=0.280  Sum_probs=37.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccccc---CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVAS---THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~---~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +=|+|+|++++|||+|+|+|+|...  .+++   ++...+.|.+.+        +++  ..+.++||+|+
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~--~~~~~~~~T~~~~~~~~~~--------~~~--~~~~~~DtpG~   59 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKP--KIADYHFTTLVPNLGMVET--------DDG--RSFVMADLPGL   59 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECC--EESSTTSSCCCCCEEEEEC--------SSS--CEEEEEEHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCC--ceecCCCceEeeeeceeEe--------cCC--cEEEEecCCCc
Confidence            3489999999999999999998652  2221   222334555543        123  35788999997

>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=97.54  E-value=3.2e-05  Score=72.00  Aligned_cols=56  Identities=20%  Similarity=0.272  Sum_probs=37.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      =|+++|++++|||+|+|.|+|..  +.+++. ..+|+.+-.+.         +.  .+.++||+|++...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~--~~~~~~-~g~T~~~~~~~---------~~--~~~ivDtpG~~~~~   57 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK--VRRGKR-PGVTRKIIEIE---------WK--NHKIIDMPGFGFMM   57 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC--CSSSSS-TTCTTSCEEEE---------ET--TEEEEECCCBSCCT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--ceeeCC-CCEeecccccc---------cc--cceecccCCceecc
Confidence            38999999999999999999986  455432 12565432221         11  24568999986443

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.49  E-value=5.3e-05  Score=76.72  Aligned_cols=32  Identities=31%  Similarity=0.441  Sum_probs=25.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCT  108 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~T  108 (716)
                      |+|+|.+++|||+|+|.|+|.. -+++|.+  +||
T Consensus        29 ivvvG~~SsGKSsliNaLlg~~-~lP~~~~--~~T   60 (299)
T d2akab1          29 IAVVGGQSAGKSSVLENFVGRD-FLPRGSG--IVT   60 (299)
T ss_dssp             EEEEEBTTSCHHHHHHHHHTSC-CSCCCSS--CSC
T ss_pred             EEEEcCCCCCHHHHHHHHhCCC-cCCCCCC--ccc
Confidence            7799999999999999999976 2355554  555

>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=97.45  E-value=0.00012  Score=68.93  Aligned_cols=62  Identities=21%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc-eEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK-GLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk-GIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      .++-.|+|+|.+++|||+|+|.|+|......+++. ..+|. .+..+..           ....++|+.|.+...
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~-~~~t~~~~~~~~~-----------~~~~~~d~~~~~~~~   83 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTSSK-PGKTQTLNFYIIN-----------DELHFVDVPGYGFAK   83 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC--------------CCEEEEEET-----------TTEEEEECCCBCCCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecc-cceeeeccccccc-----------ccceEEEEEeecccc
Confidence            45657999999999999999999997532233322 22333 3333321           234568888876443

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=97.43  E-value=3.6e-05  Score=75.32  Aligned_cols=108  Identities=22%  Similarity=0.340  Sum_probs=54.4

Q ss_pred             cCCCEEEEEeeCCCCCChhHHHHHhhCCC-----Cc-ccc--ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           67 VKEPIGVVSVCGRARQGKSFILNQLLGRS-----SG-FQV--ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        67 i~~pV~VVsV~G~~rtGKS~LlN~llg~~-----~g-F~~--g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +..||  |||+|...+|||+|+|.|++..     .| +..  +....+.....+...........+.....+.|+||+|.
T Consensus         3 ~r~p~--IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh   80 (227)
T d1g7sa4           3 IRSPI--VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGH   80 (227)
T ss_dssp             ECCCE--EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTT
T ss_pred             CCCCE--EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccce
Confidence            45677  9999999999999999998642     11 100  00000001111111111111011123356889999996


Q ss_pred             cccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHH
Q 005055          139 DAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV  181 (716)
Q Consensus       139 ~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v  181 (716)
                      .++-...     +.++...=.-++|......+..++...+.++
T Consensus        81 ~~f~~~~-----~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~  118 (227)
T d1g7sa4          81 EAFTTLR-----KRGGALADLAILIVDINEGFKPQTQEALNIL  118 (227)
T ss_dssp             SCCTTSB-----CSSSBSCSEEEEEEETTTCCCHHHHHHHHHH
T ss_pred             ecccccc-----hhcccccceEEEEEecccCcccchhHHHHHh
Confidence            4332211     1122222223566676667777666555443

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.35  E-value=4e-05  Score=78.04  Aligned_cols=33  Identities=30%  Similarity=0.454  Sum_probs=22.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTK  109 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~Tk  109 (716)
                      |+|+|.+++|||+|+|.|+|.. -+++|++  +||.
T Consensus        27 ivVvG~~ssGKSSliNaLlG~~-~lP~~~~--~~T~   59 (306)
T d1jwyb_          27 IVVVGSQSSGKSSVLENIVGRD-FLPRGSG--IVTR   59 (306)
T ss_dssp             EEEEECSSSSHHHHHHHHHTSC-CCCC---------
T ss_pred             EEEEeCCCCCHHHHHHHHhCCC-CCCCCCC--cccc
Confidence            6789999999999999999975 2255544  6664

>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=97.35  E-value=0.00021  Score=65.85  Aligned_cols=62  Identities=19%  Similarity=0.230  Sum_probs=35.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYD  142 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~  142 (716)
                      +.|+|+|+.++|||+|+|+|+|..  +...+....+|. .|++..-      +.....+.+.||.|+....
T Consensus         1 a~V~liG~~n~GKSsLi~~L~~~~--~~~~~~~~~~t~-~~~~~~~------~~~~~~~~~~d~~g~~~~~   62 (171)
T d1mkya1           1 ATVLIVGRPNVGKSTLFNKLVKKK--KAIVEDEEGVTR-DPVQDTV------EWYGKTFKLVDTCGVFDNP   62 (171)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC-----------------CCSEEEE------EETTEEEEEEECTTTTSSG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC--cceecccCceee-ccccccc------cccccccccccccceeeee
Confidence            479999999999999999999875  322121122222 2333211      1123678999999985443

>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=97.34  E-value=0.0004  Score=64.51  Aligned_cols=61  Identities=23%  Similarity=0.429  Sum_probs=38.5

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCCCc--cccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRSSG--FQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~~g--F~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      +.++- |+|+|..++|||+|+|+|+|....  .....+...++.|.+.|.         |  ..+.++||+|+..
T Consensus         6 ~~~~k-V~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~---------~--~~~~~~d~~g~~~   68 (186)
T d1mkya2           6 TDAIK-VAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFID---------G--RKYVFVDTAGLRR   68 (186)
T ss_dssp             CSCEE-EEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEET---------T--EEEEESSCSCC--
T ss_pred             CCCCE-EEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccC---------C--ceeeeeccCCccc
Confidence            34454 899999999999999999987521  112234445556666552         2  5678899999843

>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=97.32  E-value=5.8e-05  Score=68.58  Aligned_cols=59  Identities=20%  Similarity=0.282  Sum_probs=36.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |+++|.+++|||+|+|+|.|....+ ++. .-.+|.....+...       .....+.+.||+|+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~~~~~-~~~-~~~~~~~~~~~~~~-------~~~~~~~~~Dt~G~~~~   61 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNEDRAI-VTD-IPGTTRDVISEEIV-------IRGILFRIVDTAGVRSE   61 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHTBCC-CCC-SSCCSSCSCCEEEE-------ETTEEEEEEESSCCCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCcee-eec-cccccccceeEEEE-------eCCeeEEeccccccccC
Confidence            7899999999999999999875222 111 11223222222111       11267889999998543

>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=97.22  E-value=0.00018  Score=65.26  Aligned_cols=54  Identities=30%  Similarity=0.439  Sum_probs=34.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccc-cccC---CCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQ-VAST---HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~-~g~~---~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|++.+|||+|+|+|+|..  +. +.+.   ......+.-.|           ..+.+.++||.|+..
T Consensus         4 I~lvG~~nvGKSsLin~l~~~~--~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~d~~g~~~   61 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGRE--AAIVTDIAGTTRDVLREHIHI-----------DGMPLHIIDTAGLRE   61 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSC--CSCCCSSTTCCCSCEEEEEEE-----------TTEEEEEEECCCCSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--ceEeecccccccceEeeeeec-----------cCceeeecccccccc
Confidence            6799999999999999999875  22 2211   11111122222           125788999999854

>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=97.19  E-value=0.00016  Score=72.60  Aligned_cols=57  Identities=25%  Similarity=0.257  Sum_probs=34.8

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE-EeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL-WLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI-Wmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      .-|+|+|.+.+|||+|+|.|+|.. ...+|+.. ..|+++ |++..         .  .+.|+||+|+.-+
T Consensus       113 ~~v~vvG~PNvGKSsliN~L~~~~-~~~~~~~p-G~Tr~~~~i~~~---------~--~~~l~DTPGi~~p  170 (273)
T d1puja_         113 IRALIIGIPNVGKSTLINRLAKKN-IAKTGDRP-GITTSQQWVKVG---------K--ELELLDTPGILWP  170 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC-CC-------------CCEEET---------T--TEEEEECCCCCCS
T ss_pred             eEEEEEecCccchhhhhhhhhccc-eEEECCcc-cccccceEEECC---------C--CeEEecCCCcccc
Confidence            349999999999999999999975 24455432 245553 44421         1  3889999998543

>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=97.10  E-value=0.00027  Score=65.95  Aligned_cols=98  Identities=11%  Similarity=0.133  Sum_probs=49.7

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcccccCCcchhHHH
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQTGTYSTQIF  152 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~~~~~d~~IF  152 (716)
                      -|||+|...+|||+|+|+|.|....-....+....++|+-.-...... .  ..+..+.++||+|..++     ......
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~--~~~~~~~~~d~~g~~~~-----~~~~~~   78 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAF-K--LENYRITLVDAPGHADL-----IRAVVS   78 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTTC--------------------CCCEE-E--ETTEEEEECCCSSHHHH-----HHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeecccccccc-c--cCCcccccccccccccc-----ccchhh
Confidence            599999999999999999997532111000111122333211111100 0  11256788999985321     123344


Q ss_pred             HHhhhccceEEEccCCCCchHhhhhh
Q 005055          153 SLAVLLSSMFIYNQMGGIDESAIDRL  178 (716)
Q Consensus       153 aLa~LLSS~~IyN~~g~i~e~~l~~L  178 (716)
                      ++...=.-++++.....+..++.+.+
T Consensus        79 ~l~~~d~~ilv~d~~~g~~~~~~~~~  104 (179)
T d1wb1a4          79 AADIIDLALIVVDAKEGPKTQTGEHM  104 (179)
T ss_dssp             HTTSCCEEEEEEETTTCSCHHHHHHH
T ss_pred             hhhhccccccccccccccchhhhhhh
Confidence            55554455677777777776655433

>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=97.07  E-value=0.00044  Score=63.62  Aligned_cols=58  Identities=31%  Similarity=0.561  Sum_probs=40.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcccc----ccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQV----ASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~----g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .-+++|+|+|..++|||+|+|+|.|..  +..    +.+..+.+.|.++-.           ...++++|+.|..
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~--~~~~~~~~~t~~~~~~~~~~~~-----------~~~~~~~~~~~~~   64 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQK--ISITSRKAQTTRHRIVGIHTEG-----------AYQAIYVDTPGLH   64 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCS--EEECCCCSSCCSSCEEEEEEET-----------TEEEEEESSSSCC
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCC--ceeeccCCCceEEEEEeeeecC-----------CceeEeecCCCce
Confidence            357889999999999999999999975  222    234445555666532           1356778888853

>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=96.94  E-value=0.00045  Score=67.42  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ...++|+.+.|||+|+|.|+|.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTT
T ss_pred             eEEEECCCCCCHHHHHHhhcch
Confidence            3467899999999999999986

>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=96.73  E-value=0.0008  Score=63.71  Aligned_cols=56  Identities=20%  Similarity=0.335  Sum_probs=39.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|++..  |....+....|.+...+.        ++..+.+.+.||.|.+
T Consensus         3 V~ivG~~~~GKTsLl~~l~~~~--~~~~~~t~~~~~~~~~~~--------~~~~~~~~~~d~~g~~   58 (207)
T d2fh5b1           3 VLFVGLCDSGKTLLFVRLLTGQ--YRDTQTSITDSSAIYKVN--------NNRGNSLTLIDLPGHE   58 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCCBCCCCSCEEEEEECS--------STTCCEEEEEECCCCH
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCcccCCeeEEEEEEEEe--------eeeeeeeeeeeccccc
Confidence            7899999999999999999865  433333333455555432        2344678889999853

>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=96.65  E-value=0.00058  Score=64.31  Aligned_cols=53  Identities=19%  Similarity=0.193  Sum_probs=34.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .|+|+|++++|||+|+|+|.|..  |.-+.|+...+..       +     +.....+.++||+|..
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~--~~~~tt~~~~~~~-------~-----~~~~~~~~l~D~~g~~   57 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDS--VRPTVVSQEPLSA-------A-----DYDGSGVTLVDFPGHV   57 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--CCCBCCCSSCEEE-------T-----TGGGSSCEEEECCCCG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC--CCCeEEecceEEE-------E-----EeCCeEEEEEeccccc
Confidence            57899999999999999999875  3222222222111       1     1122457789999964

>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=96.56  E-value=0.0012  Score=59.94  Aligned_cols=53  Identities=23%  Similarity=0.302  Sum_probs=38.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.|..  |.   ++ ..|.|+-.....       ...+.+.+.||.|..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~--~~---~~-~~t~~~~~~~~~-------~~~~~~~~~D~~G~~   57 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED--VD---TI-SPTLGFNIKTLE-------HRGFKLNIWDVGGQK   57 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC--CS---SC-CCCSSEEEEEEE-------ETTEEEEEEEECCSH
T ss_pred             EEEECCCCCCHHHHHHHHcCCC--CC---cc-cceEeeeeeecc-------ccccceeeeecCcch
Confidence            6699999999999999998765  42   22 346676655432       234789999999954

>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=96.52  E-value=0.00084  Score=61.92  Aligned_cols=59  Identities=25%  Similarity=0.235  Sum_probs=39.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|..++|||+|+|++.+..  |...+  .+.|.|+......+.   .+|..+.+.++|+.|..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~~--~~~~~--~~~t~~~~~~~~~~~---~~~~~~~~~~~d~~~~~   64 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGVH--DSMDS--DCEVLGEDTYERTLM---VDGESATIILLDMWENK   64 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCCC--CTTCC--C---CCTTEEEEEEE---ETTEEEEEEEECCTTTT
T ss_pred             EEEECCCCcCHHHHHHHHHhCc--CCccc--cccceeeecceeeec---cCCceeeeeeecccccc
Confidence            6789999999999999999875  33222  234566654443332   24667889999998753

>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=96.48  E-value=0.00085  Score=61.76  Aligned_cols=58  Identities=16%  Similarity=0.254  Sum_probs=39.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|++++..  |.-.   ...|-|+-++...+.   .+|..+.+.+.||.|..
T Consensus         6 i~vvG~~~vGKTsli~~~~~~~--f~~~---~~~Ti~~~~~~~~~~---~~~~~~~l~i~D~~g~~   63 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTGE--FEKK---YVATLGVEVHPLVFH---TNRGPIKFNVWDTAGQE   63 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-------CC---EEEETTEEEEEEEEC---BTTCCEEEEEEECTTHH
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcc---cccceeccccccccc---ccccccccccccccccc
Confidence            6788999999999999998765  5322   234677765554432   35677899999999964

>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=96.47  E-value=0.0014  Score=59.68  Aligned_cols=57  Identities=19%  Similarity=0.274  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.. .+...+..+|-+..       +|..+.+.+.||.|..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~--~~~~~~~t~~~~~~~~~i~~-------~~~~~~~~i~Dt~G~~   62 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK--FNPSFITTIGIDFKIKTVDI-------NGKKVKLQIWDTAGQE   62 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC--CCC-------CCEEEEEEES-------SSCEEEEEEECCTTGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCccCCccceeEEEEEEEE-------CCEEEEEEEEECCCch
Confidence            6799999999999999998754  43221 11122334444432       3566788899999964

>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=96.45  E-value=0.0016  Score=59.63  Aligned_cols=60  Identities=23%  Similarity=0.376  Sum_probs=37.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|+.++|||+|+|++++..  |.....  +.|.|+=.-...+   ..+|..+.+-+.||.|.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~~--~~~~~~--~~~~~~~~~~~~~---~~~~~~~~l~i~Dt~G~e~   68 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDGA--FLAGTF--ISTVGIDFRNKVL---DVDGVKVKLQMWDTAGQER   68 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCCCCC--CCCCSCEEEEEEE---EETTEEEEEEEEECCCC--
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcccc--cceeeeeeEEEEE---EecCcEEEEEEEECCCchh
Confidence            7899999999999999998754  532221  2232322221111   1246668899999999643

>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=96.45  E-value=0.0012  Score=60.62  Aligned_cols=58  Identities=21%  Similarity=0.271  Sum_probs=37.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-..   ..|.|+=.+...+.   .++..+.+-|.||.|..
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~l~~wDt~G~e   65 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADDS--FTPAF---VSTVGIDFKVKTIY---RNDKRIKLQIWDTAGQE   65 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCSSC---CCCCSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHcCC--CCccc---ccccccceeeEEEE---eecceEEEEEEECCCch
Confidence            7899999999999999998765  43221   12333322222221   13445778899999953

>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=96.34  E-value=0.0013  Score=59.91  Aligned_cols=58  Identities=21%  Similarity=0.329  Sum_probs=38.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.   ...|.|+......+   ..++..+.+.+.||.|..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~--~~~~---~~~ti~~~~~~~~~---~~~~~~~~~~i~d~~g~~   62 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI--FTKD---YKKTIGVDFLERQI---QVNDEDVRLMLWDTAGQE   62 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC--CCCC---SSCCCSSSEEEEEE---EETTEEEEEEEECCTTGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcc---cccccccccceeee---eecCceeeeeeeccCCcc
Confidence            6799999999999999998654  4321   12344443332222   124566889999999964

>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=96.32  E-value=0.0023  Score=61.09  Aligned_cols=105  Identities=14%  Similarity=0.148  Sum_probs=62.3

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCC------CccccccCCC----cccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRS------SGFQVASTHR----PCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~------~gF~~g~~~~----~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |..=|+|+|-..+|||+|+|+|++..      ..+..+.+..    -..+||=|-..+....   ..+..+-|+||+|..
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~---~~~~~i~iiDtPGh~   78 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE---TAKRHYSHVDCPGHA   78 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE---CSSCEEEEEECCCSG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEE---eCCeEEEEEeCCCch
Confidence            43348899999999999999998421      1111110000    0012333322222111   123567889999964


Q ss_pred             ccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHHH
Q 005055          140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVT  182 (716)
Q Consensus       140 ~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v~  182 (716)
                      ++-     ...+-+++..=.-++|......+..+..++|.+..
T Consensus        79 df~-----~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~  116 (204)
T d2c78a3          79 DYI-----KNMITGAAQMDGAILVVSAADGPMPQTREHILLAR  116 (204)
T ss_dssp             GGH-----HHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHH
T ss_pred             hhH-----HHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHH
Confidence            322     24466777766778999988888988887776543

>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=96.27  E-value=0.0015  Score=61.39  Aligned_cols=59  Identities=22%  Similarity=0.318  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|+.++|||+|+|+|.+..  |.-..   ..|.|+=.-...+   ..+|..+.+-++||.|...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~--~~~~~---~~t~~~~~~~~~i---~~~~~~~~l~i~Dt~G~e~   67 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT--YTNDY---ISTIGVDFKIKTV---ELDGKTVKLQIWDTAGQER   67 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC--CCTTC---CCSSCCCEEEEEE---EETTEEEEEEEECCTTTTT
T ss_pred             EEEECCCCcCHHHHHHHHhhCC--CCCCc---CCccceeEEEEEE---EEeeEEEEEEEEECCCchh
Confidence            6789999999999999998654  43221   1233322211111   1135568899999999643

>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=96.24  E-value=0.0036  Score=58.81  Aligned_cols=27  Identities=19%  Similarity=0.351  Sum_probs=23.6

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ++|.+=|||+|--..|||||+|+|+|.
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g~   28 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTGV   28 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHhh
Confidence            356777999998889999999999985

>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=96.23  E-value=0.0022  Score=58.09  Aligned_cols=58  Identities=22%  Similarity=0.358  Sum_probs=40.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.   ...|.|+......+.   .++..+.+.+.||.|..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~--~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~i~d~~g~~   60 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS--FDNT---YQATIGIDFLSKTMY---LEDRTIRLQLWDTAGQE   60 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC--CCSS---CCCCCSEEEEEEEEE---CSSCEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCc---cccceeeeccceeec---cCCCceeeeecccCCcc
Confidence            6788999999999999999765  5321   123445544443332   24667889999999964

>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=96.22  E-value=0.0022  Score=57.05  Aligned_cols=53  Identities=17%  Similarity=0.135  Sum_probs=34.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |.....   .+.+ ...       ..++..+.+.+.|+.|..
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~--~~~~~~---~~~~-~~~-------~~~~~~~~~~~~d~~g~~   55 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE--IVTTIP---TIGF-NVE-------TVEYKNISFTVWDVGGQD   55 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC--SSCCCC---CSSC-CEE-------EEECSSCEEEEEECCCCG
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--CCcccc---ceee-EEE-------EEeeeeEEEEEecCCCcc
Confidence            5699999999999999998765  422111   1111 111       123445789999999964

>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=96.22  E-value=0.00064  Score=66.54  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=19.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +.++  .++|+.+.|||+|+|.|+|.
T Consensus        97 ~~~~--vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          97 DKTT--VFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             TSEE--EEEESHHHHHHHHHHHHCC-
T ss_pred             cceE--EEECCCCccHHHHHHhhccH
Confidence            4444  48899999999999999986

>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=96.15  E-value=0.0019  Score=59.18  Aligned_cols=57  Identities=16%  Similarity=0.309  Sum_probs=37.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|..++|||+|+|+|.+..  |.-... ...|.++..+...     .++..+.+.+.||.|.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~--f~~~~~-~~~~~~~~~~~~~-----~~~~~~~l~i~Dt~G~   64 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL--FPPGQG-ATIGVDFMIKTVE-----INGEKVKLQIWDTAGQ   64 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS--CCTTCC-CCCSEEEEEEEEE-----ETTEEEEEEEEEECCS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCccc-ccccceEEEEEEE-----ECCEEEEEEEEECCCc
Confidence            6789999999999999999765  543322 1122233333221     2355688999999994

>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=96.15  E-value=0.0027  Score=56.23  Aligned_cols=53  Identities=15%  Similarity=0.054  Sum_probs=35.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|+.++|||+|+|+|.+..  |.-   + ..|.|.......+       ....+.+.||.|..
T Consensus         3 I~liG~~nvGKSSLln~l~~~~--~~~---~-~~t~~~~~~~~~~-------~~~~~~~~~~~~~~   55 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKNDR--LAT---L-QPTWHPTSEELAI-------GNIKFTTFDLGGHI   55 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCC---C-CCCCSCEEEEECC-------TTCCEEEEECCCSG
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--CCe---e-eceeeEeEEEecc-------CCeeEEEEeeccch
Confidence            6799999999999999999875  421   1 2345554443221       22567888998864

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.15  E-value=0.0023  Score=58.11  Aligned_cols=53  Identities=19%  Similarity=0.236  Sum_probs=38.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.++|+.++|||+|+|+|.+..  |.-  .. ..|.|+-.+...       +.++.+.+.||.|-
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~--~~~--~~-~~T~~~~~~~~~-------~~~~~~~i~D~~G~   57 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ--FNE--DM-IPTVGFNMRKIT-------KGNVTIKLWDIGGQ   57 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCC--SC-CCCCSEEEEEEE-------ETTEEEEEEEECCS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC--cc-cccceeeeeeee-------eeeEEEEEeecccc
Confidence            5689999999999999998765  432  22 347887665432       23478899999984

>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=96.13  E-value=0.003  Score=58.14  Aligned_cols=57  Identities=21%  Similarity=0.306  Sum_probs=38.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCC-cccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHR-PCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~-~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-..... ..+.+++.+.       .++..+.+.+.||.|..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~--~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~Dt~G~~   67 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT--FDPELAATIGVDFKVKTIS-------VDGNKAKLAIWDTAGQE   67 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCTTCCCCCSEEEEEEEEE-------ETTEEEEEEEEEECSSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCccccceeecceeEEEE-------EeccccEEEEEECCCch
Confidence            7899999999999999999765  53322211 1222444332       23556789999999964

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.10  E-value=0.0033  Score=57.41  Aligned_cols=59  Identities=14%  Similarity=0.237  Sum_probs=33.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|+|.+..  |.-..   ..|.|.......+.  ..++..+.+.+.||.|..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~--~~~~~---~~t~~~~~~~~~~~--~~~~~~~~~~~~d~~g~~   63 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK--YSQQY---KATIGADFLTKEVT--VDGDKVATMQVWDTAGQE   63 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC--CCTTC------CCCSCEEEEEC--CSSSCCEEEEEECCC---
T ss_pred             EEEECCCCcCHHHHHHHHHcCC--CCCcc---Ccccccceeeeeee--ecCcccccceeeccCCch
Confidence            7799999999999999998765  43211   11222222211111  123344678899999953

>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=96.09  E-value=0.0023  Score=58.62  Aligned_cols=58  Identities=28%  Similarity=0.393  Sum_probs=37.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.  . +.|.|.=.....+   ..++....+.+.||.|..
T Consensus         8 I~lvG~~~vGKTsll~~~~~~~--~~~~--~-~~t~~~~~~~~~~---~~~~~~~~~~i~D~~G~~   65 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEKK--FKDD--S-NHTIGVEFGSKII---NVGGKYVKLQIWDTAGQE   65 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS--CCTT--C-CCCSEEEEEEEEE---EETTEEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcc--c-ccccccceeeEEE---EecCcceeEEEEECCCch
Confidence            7799999999999999998765  5322  1 2233332222212   124556788899999953

>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=96.08  E-value=0.0025  Score=58.21  Aligned_cols=56  Identities=23%  Similarity=0.220  Sum_probs=33.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++.+..  |.-.    +.|.|... ...+   ..+|..+.+.+.||.|..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~--~~~~----~~~~~~~~-~~~i---~~~~~~~~l~i~D~~g~e   59 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE--DGPE----AEAAGHTY-DRSI---VVDGEEASLMVYDIWEQD   59 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC---------------CEEE-EEEE---EETTEEEEEEEEECC---
T ss_pred             EEEECCCCcCHHHHHHHHhCCc--cCCc----CCeeeeee-ccee---eccccccceeeeeccccc
Confidence            6789999999999999999875  4222    22333322 1111   235777899999999964

>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=96.04  E-value=0.0011  Score=61.12  Aligned_cols=60  Identities=22%  Similarity=0.362  Sum_probs=22.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |.|+|..++|||+|+|+|++..  |.-.   .+.|.|.=.+..-+   ..+|..+.+-+.||.|....
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~--~~~~---~~~t~~~~~~~~~~---~~~~~~~~l~i~D~~G~e~~   68 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSEDA--FNST---FISTIGIDFKIRTI---ELDGKRIKLQIWDTAGQERF   68 (173)
T ss_dssp             EEEECCCCC------------------C---HHHHHCEEEEEEEE---EETTEEEEEEEEEC------
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCc---cCccccceEEEEEE---EECCEEEEEEEEECCCchhh
Confidence            6789999999999999999754  5322   12344433322222   12455688889999996533

>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=96.03  E-value=0.0026  Score=58.47  Aligned_cols=57  Identities=21%  Similarity=0.296  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||+|+|++++..  |.-... ....+...|...       .++..+.+-+.||+|..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~~--~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~d~~g~e   64 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRNE--FNLESKSTIGVEFATRSIQ-------VDGKTIKAQIWDTAGQE   64 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC--CCC---CCCSCEEEEEEEE-------ETTEEEEEEEEECSSGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCcccccccceeeeEEEE-------ECCEEEEEEecccCCcH
Confidence            7799999999999999998754  432211 111223333332       24566889999999953

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.98  E-value=0.0042  Score=55.44  Aligned_cols=54  Identities=20%  Similarity=0.228  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |+|+|.+++|||+|+|++.+..  |.-  +  ..|.|+.....+.       ..+.+.+.|+.|.+.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~--~~~--~--~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~   61 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE--VVT--T--IPTIGFNVETVTY-------KNLKFQVWDLGGLTS   61 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--CCC--C--CCCSSEEEEEEEE-------TTEEEEEEEECCCGG
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--Ccc--e--ecccceeeeeecc-------CceEEEEeecccccc
Confidence            7799999999999999999875  531  1  2355555443322       236778888888653

>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=95.97  E-value=0.0082  Score=54.52  Aligned_cols=25  Identities=36%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ..-|+++|...+|||+|+|+|+|..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~~~   40 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTNQK   40 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3459999999999999999999875

>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=95.95  E-value=0.0036  Score=56.96  Aligned_cols=58  Identities=22%  Similarity=0.336  Sum_probs=39.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++.+..  |.-   ....|.|.-.....+   ..+|..+.+-+.||.|..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~--f~~---~~~~t~~~~~~~~~~---~~~~~~~~~~~~d~~g~~   63 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK--FND---KHITTLGASFLTKKL---NIGGKRVNLAIWDTAGQE   63 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC--CCS---SCCCCCSCEEEEEEE---ESSSCEEEEEEEECCCC-
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCc---ccccccccchheeee---ccCCccceeeeeccCCcc
Confidence            6789999999999999998765  642   123355543333322   234667889999999964

>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=95.91  E-value=0.0033  Score=57.47  Aligned_cols=57  Identities=23%  Similarity=0.188  Sum_probs=38.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++.+..  |.-.   ...|.|.+.....    ..+|..+.+.++||.|..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~~--f~~~---~~~t~~~~~~~~~----~~~~~~~~~~~~d~~g~~   64 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQSY--FVTD---YDPTIEDSYTKQC----VIDDRAARLDILDTAGQE   64 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC--CCSS---CCTTCCEEEEEEE----EETTEEEEEEEEECC---
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCcc---cCcccccceeeee----eecccccccccccccccc
Confidence            7789999999999999998754  4321   1235565554332    235667889999999964

>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=95.88  E-value=0.0055  Score=55.73  Aligned_cols=57  Identities=21%  Similarity=0.224  Sum_probs=38.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.-  .. ..|.|...... +   ..++..+.+.+.||.|..
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~--f~~--~~-~~T~~~~~~~~-~---~~~~~~~~l~~~d~~g~~   61 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT--FRE--SY-IPTVEDTYRQV-I---SCDKSICTLQITDTTGSH   61 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC--CCS--SC-CCCSCEEEEEE-E---EETTEEEEEEEEECCSCS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCC--cc-Ccceeeccccc-e---eeccccceeccccccccc
Confidence            5789999999999999999865  532  11 23555432211 1   235666889999999954

>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=95.88  E-value=0.0045  Score=56.18  Aligned_cols=57  Identities=21%  Similarity=0.342  Sum_probs=37.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccC-CCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAST-HRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~-~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.-... ....+.+.+.+.       .+|..+.+.+.||.|..
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~--~~~~~~~~~~~~~~~~~~~-------~~~~~~~l~i~D~~g~~   64 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK--FMADCPHTIGVEFGTRIIE-------VSGQKIKLQIWDTAGQE   64 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCSSCTTSCCCCEEEEEEE-------ETTEEEEEEEEECTTGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCcccccccccceeEEEE-------ECCEEEEEEEeccCCch
Confidence            7789999999999999999765  443221 111222333322       24666889999999953

>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=95.76  E-value=0.0052  Score=56.30  Aligned_cols=57  Identities=26%  Similarity=0.299  Sum_probs=37.9

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++.+..  |.-  ...+ | +.+.+...+   ..+|..+.+.++||.|..
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~--f~~--~~~~-t-~~~~~~~~~---~~~~~~~~l~~~d~~g~~   65 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSY--FVS--DYDP-T-IEDSYTKIC---SVDGIPARLDILDTAGQE   65 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS--CCS--SCCT-T-CCEEEEEEE---EETTEEEEEEEEECCCTT
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCc--cccc-c-cccceeeEe---ccCCeeeeeecccccccc
Confidence            6799999999999999998654  422  1122 2 222222222   235677889999999964

>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=95.76  E-value=0.0045  Score=56.49  Aligned_cols=57  Identities=23%  Similarity=0.309  Sum_probs=40.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|+.++|||.|+|++.+..  |.-.  . ..|.|+-+....    ..+|..+.+-+.||.|..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~--f~~~--~-~pTi~~~~~~~~----~~~~~~~~l~i~D~~g~~   61 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR--FIWE--Y-DPTLESTYRHQA----TIDDEVVSMEILDTAGQE   61 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC--CCSC--C-CTTCCEEEEEEE----EETTEEEEEEEEECCCCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCc--c-CCceeccccccc----cccccceEEEEeeccccc
Confidence            5689999999999999999765  6422  1 235565433222    235677899999999853

>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=95.74  E-value=0.0058  Score=55.40  Aligned_cols=58  Identities=26%  Similarity=0.368  Sum_probs=38.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|+|+|.+..  |.-  ... .|.|.-. ...+   ..+|..+.+-+.||.|...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~~--f~~--~~~-~t~~~~~-~~~~---~~~~~~~~l~i~d~~g~~~   64 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEGQ--FVD--SYD-PTIENTF-TKLI---TVNGQEYHLQLVDTAGQDE   64 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC--CCS--CCC-SSCCEEE-EEEE---EETTEEEEEEEEECCCCCT
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCc--ccC-cceeccc-ceEE---ecCcEEEEeeecccccccc
Confidence            6789999999999999998654  532  111 2333221 1111   2356778899999999754

>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=95.70  E-value=0.0051  Score=55.97  Aligned_cols=58  Identities=19%  Similarity=0.328  Sum_probs=40.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|++++.+..  |.-   ..+.|.|+=+....+   ..++..+.+-+.||.|..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~--f~~---~~~~t~~~~~~~~~i---~~~~~~~~l~i~d~~g~~   63 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND--FAE---NKEPTIGAAFLTQRV---TINEHTVKFEIWDTAGQE   63 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCT---TCCCCSSEEEEEEEE---EETTEEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCc---cccccccceeecccc---ccccccccccccccCCch
Confidence            5689999999999999998765  532   223466654433222   124666889999999964

>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=95.68  E-value=0.0044  Score=56.48  Aligned_cols=58  Identities=21%  Similarity=0.316  Sum_probs=38.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+++|.+..  |.-..   +.|.|+-.....+.   .++..+.+.+.||.|..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~--f~~~~---~~t~~~~~~~~~~~---~~~~~~~~~~~d~~g~~   66 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ--FHEFQ---ESTIGAAFLTQTVC---LDDTTVKFEIWDTAGQE   66 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC--CCTTC---CCCSSEEEEEEEEE---ETTEEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCccc---ccccccccccceee---ccceEEEEEeccCCCch
Confidence            6889999999999999999654  54332   22444433322221   13445789999999964

>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=95.67  E-value=0.0055  Score=56.06  Aligned_cols=58  Identities=24%  Similarity=0.345  Sum_probs=38.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCcccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|+.++|||+|+|++++..  |.... .....+...+.+..       ++..+.+.+.||.|...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~--~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~i~d~~g~~~   64 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR--FQPVHDLTIGVEFGARMVNI-------DGKQIKLQIWDTAGQES   64 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC--CCC-----CCSSEEEEEEEE-------TTEEEEEEEECCTTGGG
T ss_pred             EEEECCCCcCHHHHHHHHhcCC--CCCCcccceeeccceeeeee-------eeeEEEEEeecccCccc
Confidence            5689999999999999999765  43221 11223445555532       24457889999999653

>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=95.64  E-value=0.0065  Score=56.05  Aligned_cols=58  Identities=21%  Similarity=0.351  Sum_probs=40.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-   .-..|.|+=.+...+.   ..+..+.+.+.||.|..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~--f~~---~~~~t~~~~~~~~~~~---~~~~~~~~~~~d~~g~~   62 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK--FSN---QYKATIGADFLTKEVM---VDDRLVTMQIWDTAGQE   62 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC--CCS---SCCCCCSEEEEEEEEE---SSSCEEEEEEEEECSSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCC---CcCCccceeeeeeeee---eCCceEEEEeeecCCcc
Confidence            6799999999999999999755  532   1234566544443332   23556788999999964

>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=95.59  E-value=0.0037  Score=57.17  Aligned_cols=58  Identities=19%  Similarity=0.140  Sum_probs=41.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      ..+- |.|+|+.++|||+|+|+|.+..  |.-    ...|.|++.+..-       +..+.+.+.||.|...
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~--~~~----~~~t~~~~~~~~~-------~~~~~~~i~D~~g~~~   68 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ--SVT----TIPTVGFNVETVT-------YKNVKFNVWDVGGQDK   68 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC--CEE----EEEETTEEEEEEE-------ETTEEEEEEEESCCGG
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC--CCC----ccceeeeeEEEee-------ccceeeEEecCCCcch
Confidence            3455 4488999999999999998654  321    1347788776432       2347899999999653

>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=95.56  E-value=0.0067  Score=61.34  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||++|.+.+|||||.|.|.|..
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~   24 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVD   24 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC--
T ss_pred             EeEECCCCCCHHHHHHHHHCCC
Confidence            8999999999999999999864

>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=95.39  E-value=0.0075  Score=54.63  Aligned_cols=58  Identities=26%  Similarity=0.263  Sum_probs=38.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.   .+.|.|+-.-.. +   ..++..+.+.+.|+.|...
T Consensus         6 i~viG~~~vGKTsli~~l~~~~--~~~~---~~~~~~~~~~~~-~---~~~~~~~~l~~~d~~~~~~   63 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH--FVDE---YDPTIEDSYRKQ-V---VIDGETCLLDILDTAGQEE   63 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC--CCCS---CCCCSEEEEEEE-E---EETTEEEEEEEEEECCCGG
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCCc---cCCccceeeccc-e---eeeceeeeeeeeeccCccc
Confidence            7889999999999999999765  5322   123444321111 1   1245668899999998643

>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=95.39  E-value=0.0064  Score=55.56  Aligned_cols=62  Identities=23%  Similarity=0.312  Sum_probs=39.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      .|+.=|.|+|..++|||+|+|++.+..  |.-..   +.|.|.=.+...+.   .++..+.+.+.||.|.
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~--~~~~~---~~t~~~~~~~~~~~---~~~~~~~~~i~d~~g~   65 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNK--FDTQL---FHTIGVEFLNKDLE---VDGHFVTMQIWDTAGQ   65 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSC--CCC-------CCSEEEEEEEEE---ETTEEEEEEEEECCCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCC--CCCcc---ccceeeeeeeeeee---ecCceeeEeeecccCc
Confidence            355458899999999999999998754  43211   22333322222221   2455678889999985

>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=95.37  E-value=0.0068  Score=54.98  Aligned_cols=58  Identities=22%  Similarity=0.324  Sum_probs=36.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|+|.+..  |.-.   ...|.|.-.+...+   ..++....+.+.||.|..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~--f~~~---~~~t~~~~~~~~~~---~~~~~~~~~~i~d~~g~~   64 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS--FDPN---INPTIGASFMTKTV---QYQNELHKFLIWDTAGLE   64 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC--CCTT---CCCCCSEEEEEEEE---EETTEEEEEEEEEECCSG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcc---cccccccccccccc---cccccccceeeeecCCch
Confidence            5688999999999999998765  5322   12344443332221   123344667789999864

>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=95.34  E-value=0.01  Score=54.09  Aligned_cols=61  Identities=26%  Similarity=0.291  Sum_probs=42.0

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |+-=|.|+|..++|||+|+|++.+..  |.-.  . ..|.|..+-. .+   ..+|..+.+.++||.|..
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~--f~~~--~-~~T~~~~~~~-~~---~~~~~~~~l~i~d~~g~~   63 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDE--FVED--Y-EPTKADSYRK-KV---VLDGEEVQIDILDTAGQE   63 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC--CCSC--C-CTTCCEEEEE-EE---EETTEEEEEEEEECCC--
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCC--CCcc--c-CCcccccccc-cc---cccccccccccccccccc
Confidence            55557899999999999999998654  5321  1 2366665422 11   246778999999999964

>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=95.33  E-value=0.0086  Score=54.19  Aligned_cols=56  Identities=25%  Similarity=0.240  Sum_probs=36.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|..++|||+|+|++.+..  |.-  .. ..|.|--.+...    ..++..+.+-+.||.|.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~--f~~--~~-~~t~~~~~~~~~----~~~~~~~~l~~~d~~g~   61 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT--FIE--KY-DPTIEDFYRKEI----EVDSSPSVLEILDTAGT   61 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC--CCS--CC-CTTCCEEEEEEE----EETTEEEEEEEEECCCT
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCC--cc-CCceeeeeeeee----ecCcceEeeccccCCCc
Confidence            7789999999999999999765  422  11 223332212111    12456688999999985

>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=95.32  E-value=0.0066  Score=55.83  Aligned_cols=57  Identities=19%  Similarity=0.168  Sum_probs=35.1

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      .+- |.|+|+.++|||+|+|+|.+..  |....    .|.|.-.+...       ...+.+.+.||.|...
T Consensus        17 ~~K-I~lvG~~~vGKTsLi~~l~~~~--~~~~~----~t~~~~~~~~~-------~~~~~~~i~D~~g~~~   73 (182)
T d1moza_          17 ELR-ILILGLDGAGKTTILYRLQIGE--VVTTK----PTIGFNVETLS-------YKNLKLNVWDLGGQTS   73 (182)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTCCSE--EEEEC----SSTTCCEEEEE-------ETTEEEEEEEEC----
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcCC--CCccc----cccceEEEEEe-------eCCEEEEEEecccccc
Confidence            344 6699999999999999998664  43221    24444333221       1247899999999754

>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=95.23  E-value=0.016  Score=52.31  Aligned_cols=34  Identities=24%  Similarity=0.250  Sum_probs=25.5

Q ss_pred             HHHhhccCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           61 VAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        61 l~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ++++..-+..+- |.++|+.++|||+|+|+|.+..
T Consensus         4 ~~~~~~~~k~~k-I~lvG~~~vGKTsLl~~l~~~~   37 (186)
T d1f6ba_           4 LQFLGLYKKTGK-LVFLGLDNAGKTTLLHMLKDDR   37 (186)
T ss_dssp             HHHHTCTTCCEE-EEEEEETTSSHHHHHHHHSCC-
T ss_pred             HHhccccCCCCE-EEEECCCCCCHHHHHHHHhCCC
Confidence            344444455565 5599999999999999999875

>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=95.15  E-value=0.0054  Score=56.65  Aligned_cols=60  Identities=18%  Similarity=0.176  Sum_probs=35.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceE--Eeeccccc-----cccCCCCceeEEEEeCCCC
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGL--WLWSAPLK-----RTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGI--Wmw~~p~~-----~~~~~g~~~~vvlLDTEGl  138 (716)
                      |.|+|..++|||+|+|+|.+..  |.-..   ..|.|+  +.+...+.     .....+..+.+-+.||.|.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~~--~~~~~---~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~   74 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDNK--FNPKF---ITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   74 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCSC--CCCEE---EEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             EEEECCCCcCHHHHHHHHhcCC--CCCcc---CCcccceeeEEEEEEecccccccccccceEEeccccCCcc
Confidence            6789999999999999999765  42211   223322  22221111     1112233467889999985

>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=95.13  E-value=0.014  Score=55.14  Aligned_cols=26  Identities=23%  Similarity=0.464  Sum_probs=22.8

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|-.-|+|+|--.+|||||+|+|+|.
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~   31 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGI   31 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSC
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhh
Confidence            56557999998889999999999985

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.02  E-value=0.014  Score=53.00  Aligned_cols=56  Identities=21%  Similarity=0.302  Sum_probs=37.4

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      .+- |.|+|+.++|||+|+|+|.+..  |.--    ..|.|+-.....       ...+.+.+.|+.|..
T Consensus        16 ~~k-I~vvG~~~vGKSsLi~~l~~~~--~~~~----~~~~~~~~~~i~-------~~~~~~~i~d~~g~~   71 (176)
T d1fzqa_          16 EVR-ILLLGLDNAGKTTLLKQLASED--ISHI----TPTQGFNIKSVQ-------SQGFKLNVWDIGGQR   71 (176)
T ss_dssp             CEE-EEEEESTTSSHHHHHHHHCCSC--CEEE----EEETTEEEEEEE-------ETTEEEEEEECSSCG
T ss_pred             EEE-EEEECCCCCCHHHHHHHHhcCC--CCcc----eeeeeeeEEEec-------cCCeeEeEeeccccc
Confidence            454 7799999999999999998875  5311    123444332221       123788999999854

>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=94.95  E-value=0.018  Score=52.91  Aligned_cols=59  Identities=29%  Similarity=0.410  Sum_probs=40.7

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      |..=|.|+|..++|||+|+|++++..  |.-.+.    |.|.-. ...+   ..+|..+.+.+.||.|.
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~--f~~~~~----t~~~~~-~~~i---~v~~~~~~l~i~Dt~g~   62 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGS--YQVLEK----TESEQY-KKEM---LVDGQTHLVLIREEAGA   62 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSC--CCCCCC----SSCEEE-EEEE---EETTEEEEEEEEECSSC
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCC--CCCcCC----ccceeE-EEEe---ecCceEEEEEEeecccc
Confidence            55668999999999999999999876  643322    222221 1111   23677788999999985

>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=94.91  E-value=0.01  Score=53.44  Aligned_cols=58  Identities=21%  Similarity=0.377  Sum_probs=35.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||+|+|++++..  |.-..   +.|.|.-.....+.   ..+....+.++|+.|..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~--~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~   62 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR--FPDRT---EATIGVDFRERAVD---IDGERIKIQLWDTAGQE   62 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS--CCSSC---CCCCSCCEEEEEEE---ETTEEEEEEEEECCCSH
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCcc---Ccccccccceeeee---eeccceEEEEEeccCch
Confidence            6799999999999999999664  43222   22332222111111   12345778889999853

>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=94.87  E-value=0.015  Score=52.47  Aligned_cols=28  Identities=25%  Similarity=0.233  Sum_probs=23.0

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++-.=|.|+|..++|||+|+|+|.+..
T Consensus        12 ~~k~~kI~vvG~~~~GKSsLi~rl~~~~   39 (177)
T d1zj6a1          12 NHQEHKVIIVGLDNAGKTTILYQFSMNE   39 (177)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3443447799999999999999999876

>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=94.85  E-value=0.013  Score=54.25  Aligned_cols=58  Identities=24%  Similarity=0.281  Sum_probs=38.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|+|++.+..  |.-  ...| |-|.+.....    ..+|..+.+-+.||.|...
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~--f~~--~~~~-Ti~~~~~~~~----~~~~~~~~l~i~D~~g~e~   69 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA--FPE--EYVP-TVFDHYAVSV----TVGGKQYLLGLYDTAGQED   69 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS--CCC--SCCC-SSCCCEEEEE----ESSSCEEEEEEECCCCSSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC--CCC--cCCC-ceeeeeeEEE----eeCCceEEeecccccccch
Confidence            7899999999999999998654  532  1112 3343332211    1345668889999999643

>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=94.84  E-value=0.019  Score=51.93  Aligned_cols=57  Identities=23%  Similarity=0.214  Sum_probs=39.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.|+|..++|||.|++++.+..  |.-   ....|-|.-.+.. +   ..++..+.+-+.|+.|..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~--f~~---~~~~t~~~~~~~~-~---~~~~~~~~~~~~d~~g~~   62 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI--FVE---KYDPTIEDSYRKQ-V---EVDCQQCMLEILDTAGTE   62 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC--CCC---SCCCCSEEEEEEE-E---ESSSCEEEEEEEEECSSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC--CCC---ccCCcccccccee-E---EeeeeEEEeccccccCcc
Confidence            5789999999999999998765  532   1133555433322 1   235667889999999964

>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=94.81  E-value=0.013  Score=53.51  Aligned_cols=59  Identities=24%  Similarity=0.284  Sum_probs=38.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |.|+|..++|||+|+|++.+..  |.-.  . ..|.|...- ..+   ..++..+.+-+.||.|....
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~--f~~~--~-~~t~~~~~~-~~~---~~~~~~~~l~i~D~~g~~~~   63 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ--FPEV--Y-VPTVFENYV-ADI---EVDGKQVELALWDTAGLEDY   63 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC--CCSS--C-CCCSEEEEE-EEE---EETTEEEEEEEEEECCSGGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCC--c-CCceeeecc-ccc---cccccceeeeccccCccchh
Confidence            4577999999999999998765  5321  1 234443221 111   23466788999999997543

>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=94.78  E-value=0.013  Score=54.31  Aligned_cols=58  Identities=22%  Similarity=0.260  Sum_probs=39.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|++++.+..  |.-.  . ..|-|... ....   ..+|..+.+-+.||.|.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~--f~~~--~-~~t~~~~~-~~~~---~~~~~~~~l~i~D~~g~~~   63 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK--FPSE--Y-VPTVFDNY-AVTV---MIGGEPYTLGLFDTAGQED   63 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC--CCSS--C-CCCSEEEE-EEEE---EETTEEEEEEEEEECCSGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCC--c-CCceeeec-ceeE---eeCCceeeeeccccccchh
Confidence            6688999999999999999765  5322  1 23555442 2222   2246668899999999653

>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=94.72  E-value=0.0068  Score=54.32  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||+|+|+.+||||||+|.|+..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999999863

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=94.50  E-value=0.029  Score=55.58  Aligned_cols=101  Identities=14%  Similarity=0.140  Sum_probs=58.5

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCccc------cccCCC-----cccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQ------VASTHR-----PCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~------~g~~~~-----~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      --|+|+|..++|||+|+..|+....-..      -|+++-     -.-+|+=+-..+.+..   ..++.+-|+||+|..+
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~---~~~~~~n~iDtPGh~d   79 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLL---FRGHRVFLLDAPGYGD   79 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEE---ETTEEEEEEECCCSGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeeccccc---ccccceeEEccCchhh
Confidence            3589999999999999999973321111      011100     0012221111111110   1236788999999643


Q ss_pred             cccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          141 YDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       141 ~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      +     ....+-+|.+.=+-++|.+....+..+....+++
T Consensus        80 F-----~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~  114 (267)
T d2dy1a2          80 F-----VGEIRGALEAADAALVAVSAEAGVQVGTERAWTV  114 (267)
T ss_dssp             G-----HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH
T ss_pred             h-----hhhhhhhhcccCceEEEeeccCCccchhHHHHHh
Confidence            2     1345668887778889999887777766655543

>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=94.43  E-value=0.0054  Score=55.70  Aligned_cols=29  Identities=24%  Similarity=0.499  Sum_probs=23.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC--CCccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGR--SSGFQVA  101 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~--~~gF~~g  101 (716)
                      ||+|+|..+||||||+++|+..  ..|+.++
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~   33 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVG   33 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCeEE
Confidence            8999999999999999999864  3455543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=94.32  E-value=0.014  Score=59.56  Aligned_cols=28  Identities=21%  Similarity=0.065  Sum_probs=24.4

Q ss_pred             ccCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           66 LVKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        66 ~i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ...++.-+|+|.|++++|||+|+|.|..
T Consensus        49 ~~~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          49 PYCGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             GGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hccCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            3456788999999999999999999973

>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=94.30  E-value=0.065  Score=53.22  Aligned_cols=99  Identities=14%  Similarity=0.249  Sum_probs=59.6

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhh---CCC-------Ccccccc-CCCcccceEEeeccccccccCCCCceeEEEEeCCCC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLL---GRS-------SGFQVAS-THRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI  138 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~ll---g~~-------~gF~~g~-~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl  138 (716)
                      +|-=|+|+|..++|||+|+..|+   |..       .|-.+.. ...-..+||=+-..++...   ..++.+-|+||+|.
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~---~~~~~~n~iDtPG~   81 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCF---WKDHRINIIDAPGH   81 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEE---ETTEEEEEECCCSS
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeec---cCCeEEEEecCCch
Confidence            34458999999999999999997   211       1111110 0112234554444433321   22467899999997


Q ss_pred             cccccCCcchhHHHHHhhhccceEEEccCCCCchHhhh
Q 005055          139 DAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAID  176 (716)
Q Consensus       139 ~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~  176 (716)
                      .++-     ...+.+|.+.=+.++|.+....+..+...
T Consensus        82 ~dF~-----~e~~~~l~~~D~avlVvda~~Gv~~~T~~  114 (276)
T d2bv3a2          82 VDFT-----IEVERSMRVLDGAIVVFDSSQGVEPQSET  114 (276)
T ss_dssp             SSCS-----TTHHHHHHHCCEEEEEEETTTSSCHHHHH
T ss_pred             hhhH-----HHHHHHHHhhhheEEeccccCCcchhHHH
Confidence            5432     23467888888899999998888765443

>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=94.26  E-value=0.021  Score=51.81  Aligned_cols=57  Identities=23%  Similarity=0.169  Sum_probs=38.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|..++|||+|+|++++..  |.-.  . ..|.|...... +   ..++..+.+-+.||.|..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~--~~~~--~-~~t~~~~~~~~-~---~~~~~~~~~~i~d~~g~~   63 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI--FVPD--Y-DPTIEDSYLKH-T---EIDNQWAILDVLDTAGQE   63 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS--CCTT--C-CTTCCEEEEEE-E---EETTEEEEEEEEECCSCG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCcc--c-Ccceeeccccc-c---cccccccccccccccccc
Confidence            6688999999999999998754  4322  1 12444433221 1   234667889999999964

>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=94.09  E-value=0.013  Score=55.36  Aligned_cols=24  Identities=29%  Similarity=0.589  Sum_probs=20.9

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      +|+ ||+|.|+.+||||||.+.|..
T Consensus         1 ~P~-iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           1 EPF-LIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CCE-EEEEECSTTSSHHHHHHHHHH
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHH
Confidence            355 699999999999999999864

>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=94.06  E-value=0.0089  Score=54.22  Aligned_cols=21  Identities=19%  Similarity=0.528  Sum_probs=19.6

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+||.++||||||+.|+|.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999974

>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=93.99  E-value=0.024  Score=55.00  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||||.|.|-.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            79999999999999999998864

>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=93.90  E-value=0.017  Score=52.77  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.1

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .+|+ ||+|.|+.+||||||.+.|..
T Consensus        20 ~~~~-iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          20 AGRL-VLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSSE-EEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCE-EEEEECCCCCCHHHHHHHHHH
Confidence            3577 799999999999999999874

>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=93.87  E-value=0.032  Score=51.22  Aligned_cols=59  Identities=22%  Similarity=0.243  Sum_probs=39.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAY  141 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~  141 (716)
                      |.++|..++|||.|+++++...  |.-.  . ..|-|.+.... +   ..++..+.+-+.||.|....
T Consensus         5 ivliG~~~vGKTsli~r~~~~~--f~~~--~-~~t~~~~~~~~-~---~~~~~~~~~~i~D~~g~~~~   63 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC--FPEN--Y-VPTVFENYTAS-F---EIDTQRIELSLWDTSGSPYY   63 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC--CCSS--C-CCCSEEEEEEE-E---ECSSCEEEEEEEEECCSGGG
T ss_pred             EEEECCCCcCHHHHHHHHHhCC--CCCc--c-CCceeeccccc-c---cccceEEeeccccccccccc
Confidence            5689999999999999998765  5321  1 12444333322 1   23567788999999996543

>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=93.77  E-value=0.021  Score=55.37  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||+|.|.|-.
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            79999999999999999999853

>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=93.76  E-value=0.03  Score=51.36  Aligned_cols=58  Identities=24%  Similarity=0.201  Sum_probs=38.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.|+|..++|||+|+|+|++..  |.-.  . ..|-|.+.... +   ..++..+.+-+.|+.|-..
T Consensus         8 ivviG~~~vGKTsli~~~~~~~--f~~~--~-~~ti~~~~~~~-~---~~~~~~~~~~~~d~~g~~~   65 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA--FPGE--Y-IPTVFDNYSAN-V---MVDGKPVNLGLWDTAGQED   65 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--CCSS--C-CCCSCCEEEEE-E---EETTEEEEEEEECCCCSGG
T ss_pred             EEEECCCCCCHHHHHHHHHhCC--CCcc--c-ccceeeceeee-e---eccCcceEEEeeccccccc
Confidence            7899999999999999999765  5321  1 12444433221 1   2356667888999988643

>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=93.61  E-value=0.061  Score=51.56  Aligned_cols=108  Identities=13%  Similarity=0.155  Sum_probs=60.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcccccc------------CCCcccceEEeecc-ccc----------cccCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQVAS------------THRPCTKGLWLWSA-PLK----------RTALDG  125 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~------------~~~~~TkGIWmw~~-p~~----------~~~~~g  125 (716)
                      .++-=|+|+|--.+|||||+++|+....++.-.+            +....+..-|.+.. +..          ......
T Consensus         7 ~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~   86 (222)
T d1zunb3           7 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST   86 (222)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEec
Confidence            3444488999999999999999985433221100            00001111122110 000          000011


Q ss_pred             CceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHH
Q 005055          126 TEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV  181 (716)
Q Consensus       126 ~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v  181 (716)
                      .+..+.++||+|-.++     -...+-+++..=.-++|......+..+..++|.+.
T Consensus        87 ~~~~~~iiD~PGH~df-----v~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~  137 (222)
T d1zunb3          87 AKRKFIIADTPGHEQY-----TRNMATGASTCDLAIILVDARYGVQTQTRRHSYIA  137 (222)
T ss_dssp             SSEEEEEEECCCSGGG-----HHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             cceEEEEEeccchhhh-----hhhhccccccCceEEEEeccccCcccchHHHHHHH
Confidence            2367899999995322     13445566665567788888888888888777654

>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=93.53  E-value=0.016  Score=56.65  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|--
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            79999999999999999999864

>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=93.51  E-value=0.016  Score=55.16  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=20.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .||+|+|+.++|||||+++|+.
T Consensus         1 ~vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           1 MIVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Confidence            3899999999999999999973

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=93.49  E-value=0.017  Score=56.41  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |++|+||.++|||||||.|+|..
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999999874

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.47  E-value=0.017  Score=56.51  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -+|+|+|+.++|||||++.|+|--
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            479999999999999999999863

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=93.38  E-value=0.018  Score=55.96  Aligned_cols=23  Identities=35%  Similarity=0.390  Sum_probs=21.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|.|-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            79999999999999999998863

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.017  Score=56.72  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|--
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            79999999999999999999864

>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=93.30  E-value=0.045  Score=51.52  Aligned_cols=101  Identities=17%  Similarity=0.216  Sum_probs=57.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC---Cc--c----ccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCccccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS---SG--F----QVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDAYDQ  143 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~---~g--F----~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~~~~  143 (716)
                      =|+|+|--..|||||+|+|++..   .+  |    ..........+||=+-......   +.....+-++||+|-.++- 
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~---~~~~~~~~~iDtPGh~~f~-   80 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEY---STAARHYAHTDCPGHADYV-   80 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEE---ECSSCEEEEEECSSHHHHH-
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEE---EeceeeEEeecCcchHHHH-
Confidence            37899999999999999998521   00  1    1111222334565443322211   1223568889999953221 


Q ss_pred             CCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHHH
Q 005055          144 TGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLV  181 (716)
Q Consensus       144 ~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~v  181 (716)
                          ...+-++...=.-++|......+.++..+++.+.
T Consensus        81 ----~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a  114 (196)
T d1d2ea3          81 ----KNMITGTAPLDGCILVVAANDGPMPQTREHLLLA  114 (196)
T ss_dssp             ----HHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             ----HHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHH
Confidence                1233344433345677777777788777766554

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.26  E-value=0.016  Score=54.89  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|+|.-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            78999999999999999999864

>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=93.21  E-value=0.029  Score=55.56  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      -|+|||.+.+|||||.|.|.+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            38999999999999999998654

>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=93.19  E-value=0.037  Score=53.87  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|.|--
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            79999999999999999999864

>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=93.18  E-value=0.033  Score=51.18  Aligned_cols=52  Identities=23%  Similarity=0.388  Sum_probs=34.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |.++|..++|||+|++++-     |.  +...| |.|+-.-.  +.     .....+.+.||.|...
T Consensus         5 ivllG~~~vGKTsll~r~~-----f~--~~~~p-TiG~~~~~--~~-----~~~~~~~~~D~~gq~~   56 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMR-----II--HGQDP-TKGIHEYD--FE-----IKNVPFKMVDVGGQRS   56 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHH-----HH--HSCCC-CSSEEEEE--EE-----ETTEEEEEEEECC---
T ss_pred             EEEECCCCCCHHHHHHHHh-----cC--CCCCC-eeeeEEEE--Ee-----eeeeeeeeecccceee
Confidence            6699999999999999982     32  33334 78874322  21     2346788999999743

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.15  E-value=0.018  Score=56.60  Aligned_cols=23  Identities=30%  Similarity=0.366  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|--
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            79999999999999999999863

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=93.13  E-value=0.018  Score=51.71  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -.|.|+|+.|||||||.+.|...
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999865

>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=93.11  E-value=0.02  Score=55.81  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      |++++||.++|||||+|.|+|-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            89999999999999999999864

>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=92.99  E-value=0.017  Score=50.82  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=19.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||-|+|+++||||||++.|+...
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            46689999999999999987543

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.83  E-value=0.021  Score=57.01  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|+|.-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            79999999999999999999864

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=92.79  E-value=0.018  Score=55.88  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=21.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++|||||++.|.|-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            79999999999999999999864

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=92.78  E-value=0.024  Score=55.27  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|.|-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            79999999999999999999864

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.78  E-value=0.024  Score=55.73  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=21.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      ||+++||.++|||||+|.|.|..
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            78999999999999999999874

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.66  E-value=0.026  Score=55.67  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            79999999999999999999853

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=92.55  E-value=0.025  Score=55.20  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=21.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++||||||+.|.|-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            79999999999999999999864

>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=92.29  E-value=0.031  Score=49.51  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|.|+|+++|||||+++.|....
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            67899999999999999998654

>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=92.27  E-value=0.024  Score=55.83  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+|+.++|||||++.|+|--
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHhcC
Confidence            78999999999999999999864

>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=92.27  E-value=0.026  Score=52.21  Aligned_cols=34  Identities=26%  Similarity=0.504  Sum_probs=24.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC-CCccc--cccCCCc
Q 005055           73 VVSVCGRARQGKSFILNQLLGR-SSGFQ--VASTHRP  106 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~-~~gF~--~g~~~~~  106 (716)
                      +|.|+||.++||++|++.|+.. ..+|.  +.+|++|
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~v~~TTR~   41 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKHPDRFAYPIPHTTRP   41 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCTTTEECCCCEECSC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhCCcCeeeccccccCC
Confidence            3667999999999999999954 34453  4444444

>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=92.20  E-value=0.045  Score=53.30  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +++|+||.++||||||+.|.|-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            67899999999999999999864

>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=92.19  E-value=0.023  Score=52.18  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.1

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|.|+||.++|||+|++.|....
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            56799999999999999998653

>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=92.04  E-value=0.035  Score=49.86  Aligned_cols=21  Identities=24%  Similarity=0.224  Sum_probs=19.4

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ||.|.|+.|+||||+.+.|..
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999863

>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=91.33  E-value=0.069  Score=54.18  Aligned_cols=27  Identities=22%  Similarity=0.155  Sum_probs=24.1

Q ss_pred             cCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           67 VKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        67 i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ..+..-+|+|.|++++|||+|++.|..
T Consensus        47 ~~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          47 QTGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            456788999999999999999999874

>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=91.25  E-value=0.051  Score=50.16  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=19.9

Q ss_pred             EEEEeeCCCCCChhHHHHHhhC
Q 005055           72 GVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .||.++|.++||||||.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999984

>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=91.21  E-value=0.028  Score=54.94  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=21.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +|+|+||.++||||||+.|.|-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            79999999999999999999853

>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=91.19  E-value=0.033  Score=51.32  Aligned_cols=29  Identities=34%  Similarity=0.597  Sum_probs=23.4

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      .|+ ||+|+|+.+|||||+.+.|-  ..||.+
T Consensus         2 ~p~-IIgitG~~gSGKstva~~l~--~~g~~~   30 (191)
T d1uf9a_           2 HPI-IIGITGNIGSGKSTVAALLR--SWGYPV   30 (191)
T ss_dssp             CCE-EEEEEECTTSCHHHHHHHHH--HTTCCE
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHH--HCCCeE
Confidence            355 79999999999999999884  346654

>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=91.10  E-value=0.038  Score=49.41  Aligned_cols=28  Identities=21%  Similarity=0.382  Sum_probs=24.0

Q ss_pred             EEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           73 VVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      .|.|+|+.|+||||+.+.|....+||.+
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l~~~~~   34 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAELDGFQH   34 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSTTEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCcE
Confidence            5889999999999999999877666655

>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=90.34  E-value=0.061  Score=47.92  Aligned_cols=20  Identities=20%  Similarity=0.313  Sum_probs=18.4

Q ss_pred             EEeeCCCCCChhHHHHHhhC
Q 005055           74 VSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg   93 (716)
                      |.|.|+.+||||||+..++.
T Consensus         4 v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           4 VFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            77889999999999999884

>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=90.33  E-value=0.32  Score=49.43  Aligned_cols=107  Identities=20%  Similarity=0.287  Sum_probs=61.3

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC----------CccccccCCCcccceEEeeccccc-------------cccCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS----------SGFQVASTHRPCTKGLWLWSAPLK-------------RTALD  124 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~----------~gF~~g~~~~~~TkGIWmw~~p~~-------------~~~~~  124 (716)
                      ...|-=|+|+|...+|||+|+..|+...          .++-... ..-..+||=|-+.+..             ....+
T Consensus        14 ~~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~-~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~   92 (341)
T d1n0ua2          14 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTR-KDEQERGITIKSTAISLYSEMSDEDVKEIKQKTD   92 (341)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC-------------------CCCBCCCEEEEEEECCHHHHHHCSSCCC
T ss_pred             cccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccc-hhHHhcCceEeCCEEEEEeccCcccccchhcccc
Confidence            3556559999999999999999997211          0110000 0011123222221111             11234


Q ss_pred             CCceeEEEEeCCCCcccccCCcchhHHHHHhhhccceEEEccCCCCchHhhhhhHH
Q 005055          125 GTEYNLLLLDSEGIDAYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSL  180 (716)
Q Consensus       125 g~~~~vvlLDTEGl~~~~~~~~~d~~IFaLa~LLSS~~IyN~~g~i~e~~l~~L~~  180 (716)
                      +..+.+=|+||+|-.++     .+..+.+|.+.=.-++|.+....+..+....+..
T Consensus        93 ~~~~~inliDtPGh~dF-----~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~  143 (341)
T d1n0ua2          93 GNSFLINLIDSPGHVDF-----SSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQ  143 (341)
T ss_dssp             SSEEEEEEECCCCCCSS-----CHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHH
T ss_pred             ccceEEEEEcCCCcHHH-----HHHHHHHHhhcCceEEEEecccCcchhHHHHHHH
Confidence            55677889999996332     2455667777667788999888887766655543

>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=90.28  E-value=0.065  Score=51.10  Aligned_cols=22  Identities=23%  Similarity=0.244  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      -.||.++||+++||||.+-+|+
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999987

>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=90.13  E-value=0.07  Score=47.56  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=20.2

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||.++|+.+|||||+.+.|...
T Consensus         6 iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999999865

>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=90.02  E-value=0.066  Score=47.47  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=18.2

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+|+.||||||+.+.|...
T Consensus         7 I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            558899999999999999743

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=89.97  E-value=0.52  Score=39.53  Aligned_cols=44  Identities=14%  Similarity=0.077  Sum_probs=33.5

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005055          615 VCSEIEVLKSRSTAAEARLAAAREQALSAQEEVEEWKRKYGVAV  658 (716)
Q Consensus       615 ~~~~i~~l~~r~~~~eerl~~~~~ql~~ak~E~~~w~~kY~~~~  658 (716)
                      ...-+.+++.+...++.++..+.++....++++.+|+.+|..++
T Consensus        63 ~~e~~~~l~~~~e~l~~~i~~l~~q~~~l~~~l~~~~~~l~~~~  106 (107)
T d1fxka_          63 KDELTEELQEKLETLQLREKTIERQEERVMKKLQEMQVNIQEAM  106 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33445555566668888888888888888888999999887654

>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=89.75  E-value=0.082  Score=48.58  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||.|+||++|||||+...|...
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999854

>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=89.61  E-value=0.11  Score=50.49  Aligned_cols=21  Identities=24%  Similarity=0.265  Sum_probs=18.6

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      =|+|+|--.+|||||+.+|+.
T Consensus        26 Ni~iiGHVD~GKSTL~~~Ll~   46 (245)
T d1r5ba3          26 NIVFIGHVDAGKSTLGGNILF   46 (245)
T ss_dssp             EEEEEECGGGTHHHHHHHHHH
T ss_pred             EEEEEeeCCCCHHHHHHHHHH
Confidence            388999999999999999963

>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=89.35  E-value=0.06  Score=49.66  Aligned_cols=26  Identities=27%  Similarity=0.538  Sum_probs=20.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCCC-Cccc
Q 005055           74 VSVCGRARQGKSFILNQLLGRS-SGFQ   99 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~-~gF~   99 (716)
                      |.|+||.++||++|++.|+... .+|.
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCccee
Confidence            4589999999999999998653 3453

>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=89.29  E-value=0.072  Score=50.34  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|.|+||.++|||+|+|.|+..
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4669999999999999999864

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=89.29  E-value=0.08  Score=49.58  Aligned_cols=27  Identities=26%  Similarity=0.368  Sum_probs=22.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      -||+|.|..+|||||+.+.|-  ..||.+
T Consensus         3 ~iIgITG~igSGKStv~~~l~--~~G~~v   29 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT--DLGVPL   29 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH--TTTCCE
T ss_pred             EEEEEECCCCCCHHHHHHHHH--HCCCeE
Confidence            479999999999999999875  246654

>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=89.27  E-value=0.096  Score=46.46  Aligned_cols=23  Identities=22%  Similarity=0.158  Sum_probs=20.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||.++|+.|+||||+...|...
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~   29 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVT   29 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998743

>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=89.18  E-value=0.1  Score=48.01  Aligned_cols=27  Identities=22%  Similarity=0.320  Sum_probs=23.5

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .++.||.|+||++|||||+...|...-
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467789999999999999999997643

>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=89.00  E-value=0.066  Score=51.04  Aligned_cols=22  Identities=23%  Similarity=0.234  Sum_probs=15.4

Q ss_pred             EEEEEeeCCCCCChhHHHHHhh
Q 005055           71 IGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      =.||.++||+++||+|.+=+|+
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999988886

>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=88.99  E-value=0.097  Score=46.38  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||.|.|+.+|||||+.+.|...
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6779999999999999999865

>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=88.44  E-value=0.11  Score=49.21  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=19.6

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .||.++||+++||||.+-+|+
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            688999999999999999987

>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=88.32  E-value=0.083  Score=47.89  Aligned_cols=49  Identities=20%  Similarity=0.228  Sum_probs=31.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |.++|..++|||+|+++|....  |+        |.|+=.       ...++..+.+-+.||-|..
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~--~~--------t~~~~~-------~~~~~~~~~~~i~D~~Gq~   53 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH--EA--------GTGIVE-------THFTFKDLHFKMFDVGGQR   53 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH--SC--------CCSEEE-------EEEEETTEEEEEEEECCSG
T ss_pred             EEEECCCCCCHHHHHHHHhhCC--CC--------CccEEE-------EEEEeeeeeeeeecccccc
Confidence            6789999999999999986432  31        223211       0112334677888888854

>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=88.25  E-value=0.16  Score=48.60  Aligned_cols=28  Identities=18%  Similarity=0.399  Sum_probs=23.0

Q ss_pred             cCCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           67 VKEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        67 i~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      .+.|.+ |-+.||+|||||+|...|++..
T Consensus        29 ~~~P~~-ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          29 VESPTA-FLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             CSSCEE-EEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCCCEE-EEEECCCCCCHHHHHHHHHHHh
Confidence            346877 5589999999999999998753

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {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: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.06  E-value=0.11  Score=51.66  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhh
Q 005055           72 GVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .||+|.|+++||||||.+.|.
T Consensus        28 ~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          28 LFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEeECCCCCCHHHHHHHHH
Confidence            479999999999999998875

>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=87.47  E-value=0.13  Score=46.78  Aligned_cols=53  Identities=17%  Similarity=0.131  Sum_probs=37.3

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCcc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGIDA  140 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~~  140 (716)
                      |-|+|..++|||+|++++....  |.   ++  .|.|+-+-...       ...+.+-+.||.|...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~--~~---~~--pTiG~~~~~~~-------~~~~~~~~~d~~g~~~   57 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH--GS---GV--PTTGIIEYPFD-------LQSVIFRMVDVGGQRS   57 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT--SS---CC--CCCSCEEEEEE-------CSSCEEEEEECCCSTT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC--CC---CC--ceeeEEEEEEe-------ccceeeeecccccccc
Confidence            5689999999999999997554  53   21  37787543322       2346788899999753

>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=87.46  E-value=0.11  Score=47.65  Aligned_cols=25  Identities=20%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|+. |.|+||.||||||+...|...
T Consensus         2 ~Pm~-I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           2 DPLK-VMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CSCC-EEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeE-EEEECCCCCCHHHHHHHHHHH
Confidence            4665 559999999999999998744

>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=86.87  E-value=0.15  Score=47.18  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||+|.||++|||||+...|..+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999865

>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=86.74  E-value=0.15  Score=48.46  Aligned_cols=29  Identities=31%  Similarity=0.555  Sum_probs=25.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhCCCCc
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLGRSSG   97 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg~~~g   97 (716)
                      .||-|.-|.|--++|||||||+|+....|
T Consensus         1 ~~iPv~iitGFLGaGKTTll~~lL~~~~~   29 (222)
T d1nija1           1 NPIAVTLLTGFLGAGKTTLLRHILNEQHG   29 (222)
T ss_dssp             CCEEEEEEEESSSSSCHHHHHHHHHSCCC
T ss_pred             CCCCEEEEeeCCCCCHHHHHHHHHhcCCC
Confidence            48889999999999999999999975444

>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=86.70  E-value=0.16  Score=44.98  Aligned_cols=23  Identities=17%  Similarity=0.296  Sum_probs=19.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -||-|+|+.+|||||+...|...
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35557899999999999998754

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {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: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=86.45  E-value=0.14  Score=51.46  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhh
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLL   92 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~ll   92 (716)
                      .| .||+|+|+.++||||+.+.|.
T Consensus        79 ~P-~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          79 IP-YIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CC-EEEEEEECTTSSHHHHHHHHH
T ss_pred             CC-EEEEEeCCCCCCCcHHHHHHH
Confidence            35 479999999999999998875

>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=86.35  E-value=0.17  Score=46.23  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ||.|+||++|||||....|...
T Consensus         3 iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998754

>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=86.34  E-value=0.16  Score=46.50  Aligned_cols=27  Identities=26%  Similarity=0.383  Sum_probs=22.7

Q ss_pred             CCCEEEEEeeCCCCCChhHHHHHhhCCC
Q 005055           68 KEPIGVVSVCGRARQGKSFILNQLLGRS   95 (716)
Q Consensus        68 ~~pV~VVsV~G~~rtGKS~LlN~llg~~   95 (716)
                      +.|+ +|+|.|+-++||||+++.|....
T Consensus         7 ~kp~-~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPF-TVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCE-EEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCce-EEEEECCCCCCHHHHHHHHHHHh
Confidence            4576 68899999999999999998653

>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=86.03  E-value=0.11  Score=47.10  Aligned_cols=23  Identities=22%  Similarity=0.163  Sum_probs=19.8

Q ss_pred             CEEEEEeeCCCCCChhHHHHHhhC
Q 005055           70 PIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        70 pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ++ ||-++|+.+|||||+.+.|.-
T Consensus        19 g~-vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GC-TVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CE-EEEEESSCHHHHHHHHHHHHH
T ss_pred             Ce-EEEEECCCCCCHHHHHHHHHH
Confidence            44 577999999999999999974

>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=85.77  E-value=0.17  Score=45.21  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.0

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      -||.|.|+.++||||+.+.|...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            37889999999999999999743

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA 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: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=85.73  E-value=0.18  Score=47.12  Aligned_cols=27  Identities=30%  Similarity=0.434  Sum_probs=22.3

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQV  100 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~  100 (716)
                      .||+|+|..+|||||..|.|-  ..||.+
T Consensus         4 ~iIgitG~igSGKStv~~~l~--~~G~~v   30 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA--DLGINV   30 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH--HTTCEE
T ss_pred             EEEEEECCCcCCHHHHHHHHH--HCCCcE
Confidence            379999999999999999875  236764

>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=85.34  E-value=0.13  Score=50.97  Aligned_cols=21  Identities=19%  Similarity=0.328  Sum_probs=19.8

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |+|+|.+.+|||||.|.|.+.
T Consensus        13 iGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          13 TGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            899999999999999999864

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.04  E-value=0.12  Score=47.85  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.4

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+||.++||++|++.|+..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            459999999999999999754

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {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: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=84.85  E-value=0.21  Score=47.30  Aligned_cols=30  Identities=13%  Similarity=0.171  Sum_probs=24.1

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCCCCcccccc
Q 005055           72 GVVSVCGRARQGKSFILNQLLGRSSGFQVAS  102 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~~~gF~~g~  102 (716)
                      -+|+|.|..+|||||..|.|... .||.+-+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~-~g~~~i~   31 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN-YSAVKYQ   31 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH-SCEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh-CCCeEEc
Confidence            47999999999999999999753 3565543

>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=84.81  E-value=0.19  Score=43.44  Aligned_cols=21  Identities=33%  Similarity=0.344  Sum_probs=18.1

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |-++|+.++||||+...|+..
T Consensus         5 I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           5 IFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            566799999999999998754

>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=84.72  E-value=0.44  Score=44.87  Aligned_cols=38  Identities=26%  Similarity=0.371  Sum_probs=28.4

Q ss_pred             eeeCHHHHHHhhccCCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           54 FRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        54 l~v~~eAl~~L~~i~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      |.=-++.++.|.....+  +|.|.|+.|+|||+|++.++.
T Consensus        14 f~GR~~el~~l~~~~~~--~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          14 FFDREKEIEKLKGLRAP--ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SCCCHHHHHHHHHTCSS--EEEEEESTTSSHHHHHHHHHH
T ss_pred             CCChHHHHHHHHhccCC--EEEEEcCCCCcHHHHHHHHHH
Confidence            44455666777665555  456889999999999999874

>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=84.66  E-value=0.21  Score=44.84  Aligned_cols=21  Identities=14%  Similarity=0.271  Sum_probs=18.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+|+++|||||+...|...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            669999999999999998644

>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=84.65  E-value=0.23  Score=45.13  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             CCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           69 EPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        69 ~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      .|. ||-++|+++|||||+...|+.
T Consensus        13 ~p~-liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPE-VVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCC-EEEEECCTTSSHHHHHHHHTG
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHH
Confidence            344 677899999999999999864

>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=84.28  E-value=0.18  Score=50.85  Aligned_cols=37  Identities=22%  Similarity=0.335  Sum_probs=26.5

Q ss_pred             CHHHHHHhhcc-CCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           57 DPEAVAALQLV-KEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        57 ~~eAl~~L~~i-~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .+++..+|... ...-. |-|+|+++||||||||.|++.
T Consensus       152 ~~~~~~~l~~~v~~~~n-ili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         152 KEQAISAIKDGIAIGKN-VIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             HHHHHHHHHHHHHHTCC-EEEEESTTSSHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHhCCC-EEEEeeccccchHHHHHHhhh
Confidence            36667777542 22222 467999999999999999964

>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=83.34  E-value=0.26  Score=45.20  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             EEEEeeCCCCCChhHHHHHhhCC
Q 005055           72 GVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        72 ~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .||-|+||++|||||+...|...
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36888999999999999999764

>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=83.33  E-value=0.26  Score=44.62  Aligned_cols=21  Identities=14%  Similarity=0.344  Sum_probs=18.7

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+|+++|||||+...|...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            668999999999999999854

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

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: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=82.77  E-value=0.42  Score=49.47  Aligned_cols=42  Identities=26%  Similarity=0.369  Sum_probs=35.7

Q ss_pred             ceeeCHHHHHHhhc-cCCCEEEEEeeCCCCCChhHHHHHhhCC
Q 005055           53 KFRMDPEAVAALQL-VKEPIGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        53 ~l~v~~eAl~~L~~-i~~pV~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      .|-+.+..++.|.. +..|=++|-|+||++|||||+|..++..
T Consensus       139 ~LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         139 SLGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             GSCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hhcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhh
Confidence            46678888888765 5789999999999999999999998853

>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=82.74  E-value=0.29  Score=46.50  Aligned_cols=24  Identities=21%  Similarity=0.217  Sum_probs=20.3

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      ..++-|.||+|||||++++.++..
T Consensus        46 ~~~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          46 NMIYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHH
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHH
Confidence            445678899999999999999854

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

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: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=81.92  E-value=0.22  Score=49.53  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=16.3

Q ss_pred             EEEeeCCCCCChhHHHHHhhC
Q 005055           73 VVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg   93 (716)
                      ||+|+|+.++||||+.+.|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            799999999999999998764

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {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: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=81.87  E-value=0.32  Score=45.80  Aligned_cols=37  Identities=14%  Similarity=0.154  Sum_probs=26.6

Q ss_pred             CHHHHHHhhcc----CCCEEEEEeeCCCCCChhHHHHHhhC
Q 005055           57 DPEAVAALQLV----KEPIGVVSVCGRARQGKSFILNQLLG   93 (716)
Q Consensus        57 ~~eAl~~L~~i----~~pV~VVsV~G~~rtGKS~LlN~llg   93 (716)
                      |..|...+..+    ......+-|.|+.++|||+|++.+..
T Consensus        18 N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~   58 (213)
T d1l8qa2          18 NRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGN   58 (213)
T ss_dssp             THHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHH
Confidence            67777766553    22233356999999999999999864

>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=81.69  E-value=0.34  Score=44.90  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.9

Q ss_pred             EEEeeCCCCCChhHHHHHhhCC
Q 005055           73 VVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        73 VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +|+|-||.++||||+.-.|...
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999754

>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=81.09  E-value=0.42  Score=43.36  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCCCChhHHHHHhhCC
Q 005055           71 IGVVSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        71 V~VVsV~G~~rtGKS~LlN~llg~   94 (716)
                      +-|| ++||++|||||+...|...
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHH
Confidence            4445 7899999999999999854

>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=80.70  E-value=0.44  Score=44.81  Aligned_cols=50  Identities=22%  Similarity=0.244  Sum_probs=34.0

Q ss_pred             EEeeCCCCCChhHHHHHhhCCCCccccccCCCcccceEEeeccccccccCCCCceeEEEEeCCCCc
Q 005055           74 VSVCGRARQGKSFILNQLLGRSSGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID  139 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~~~gF~~g~~~~~~TkGIWmw~~p~~~~~~~g~~~~vvlLDTEGl~  139 (716)
                      |-++|+.++|||+|++++....  |       ..|.|+-.-...       ...+.+-+.|+-|..
T Consensus         9 illlG~~~vGKTsll~~~~~~~--~-------~pTiG~~~~~~~-------~~~~~~~~~D~~Gq~   58 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILH--V-------VLTSGIFETKFQ-------VDKVNFHMFDVGGQR   58 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH--C-------CCCCSCEEEEEE-------ETTEEEEEEECCCST
T ss_pred             EEEECCCCCCHHHHHHHHhcCC--c-------CCCCCeEEEEEE-------ECcEEEEEEecCccc
Confidence            5689999999999999985321  1       136775432211       124788899999864

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=80.69  E-value=2.6  Score=34.92  Aligned_cols=29  Identities=17%  Similarity=0.182  Sum_probs=11.8

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 005055          617 SEIEVLKSRSTAAEARLAAAREQALSAQE  645 (716)
Q Consensus       617 ~~i~~l~~r~~~~eerl~~~~~ql~~ak~  645 (716)
                      .++..++.++..++.++..+++++...+.
T Consensus        72 ~~~e~l~~~i~~l~~q~~~l~~~l~~~~~  100 (107)
T d1fxka_          72 EKLETLQLREKTIERQEERVMKKLQEMQV  100 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444444444333

>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=80.05  E-value=0.41  Score=43.11  Aligned_cols=21  Identities=24%  Similarity=0.245  Sum_probs=18.5

Q ss_pred             EEeeCCCCCChhHHHHHhhCC
Q 005055           74 VSVCGRARQGKSFILNQLLGR   94 (716)
Q Consensus        74 VsV~G~~rtGKS~LlN~llg~   94 (716)
                      |.|+|+++|||||+...|...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999998744