Psyllid ID: psy7782

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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-----
Protein Sequence
MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHcccccHHHHHHHccccccEEEEEcccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccEEEEEEEEEcccEEEEEcccccEEEEEEcccccccccccccEEEEcccccEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHccccccHHHHHHHccccccEEEEEccccccccHHHHHHHHHHHEEEEccHHHHHHHccccccccccccHHHHHHHHHHHcccHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccEEEEcHHHHHccccEEEEccccccEEEEEEEEccHHHcccccEEEEEccccEEEEEcccccccccc
Coil and Loop (DISEMBL)
MSLDVQIQEIKesvelplthpeyyeemgikppkgvilygppgtgktlpfspalgyhyycrgagsnsdkkddkdkkkkyeppiptrvgkkkrkakgpdaaiklpqvtphtkcRLKLLKLERIKDYLLMEEEFIRNqerlkpqeekneeersrvddlrgtpmsvgtleeiiddnhaiVSTSVGSEHYVSILSfvdkdqlepgcsvllnHKVHAVVgvlsddtdpmvt
Flexible Loop (DISEMBL)
MSLDVQIQEikesvelplthpeyYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGagsnsdkkddkdkkkkyeppiptrvgkkkrkakgpdaaiklpqvtphtkcrlkllkLERIKDYLLMEEEFirnqerlkpqeekneeersrvddlrgtpMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHavvgvlsddtdpmvt
Low Complexity Region (SEG)
MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSdkkddkdkkkkYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT
Disordered region (IsUnstruct)
****************PLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCR*******************************************QVTPHTKCRLKLLKLERIKDYLLMEEEFI******************************GTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVL*********
Disordered Region (DISOPRED)
*S*DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGY*************************************************VTPHTKCRLKLLKLERIKDYLLMEEEF**********************DLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDD*DP***
Disordered Region (DISEMBL)
MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAG*************KYEPPIPTR***********DAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLK***************LRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT
Disordered Region (DISPRO)
MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSD*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

No hits with e-value below 0.001 by BLAST

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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	225
FB|FBgn0015282	439	Rpt2 "Regulatory particle trip	0.657	0.337	0.945	5.9e-73
UNIPROTKB|F1NSP7	439	PSMC1 "26S protease regulatory	0.657	0.337	0.898	6.3e-69
UNIPROTKB|F1NTZ4	438	PSMC1 "26S protease regulatory	0.657	0.337	0.898	6.3e-69
UNIPROTKB|A4FUZ3	440	PSMC1 "Proteasome (Prosome, ma	0.657	0.336	0.898	6.3e-69
UNIPROTKB|F1PQ40	440	PSMC1 "Uncharacterized protein	0.657	0.336	0.898	6.3e-69
UNIPROTKB|P62191	440	PSMC1 "26S protease regulatory	0.657	0.336	0.898	6.3e-69
UNIPROTKB|F2Z5J1	440	PSMC1 "Uncharacterized protein	0.657	0.336	0.898	6.3e-69
MGI|MGI:106054	440	Psmc1 "protease (prosome, macr	0.657	0.336	0.898	6.3e-69
RGD|621097	440	Psmc1 "proteasome (prosome, ma	0.657	0.336	0.898	6.3e-69
UNIPROTKB|Q90732	440	PSMC1 "26S protease regulatory	0.657	0.336	0.891	3.5e-68

FB|FBgn0015282 Rpt2 "Regulatory particle triple-A ATPase 2" [Drosophila melanogaster (taxid:7227)]

 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 140/148 (94%), Positives = 147/148 (99%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPPIPTRVGKKKR+AKGPDAA+KLPQVTPHT+CRLKLLKLERIKDYL+ME+EFIRNQER
Sbjct:    24 YEPPIPTRVGKKKRRAKGPDAAMKLPQVTPHTRCRLKLLKLERIKDYLMMEDEFIRNQER 83

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             LKPQ+EKNEEERS+VDDLRGTPMSVG LEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL
Sbjct:    84 LKPQDEKNEEERSKVDDLRGTPMSVGNLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 143

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAVVGVLSDDTDPMVT
Sbjct:   144 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 171

GO:0006508 "proteolysis" evidence=ISS;IDA;NAS

GO:0000502 "proteasome complex" evidence=NAS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=NAS

GO:0016887 "ATPase activity" evidence=NAS

GO:0008540 "proteasome regulatory particle, base subcomplex" evidence=ISS

GO:0004175 "endopeptidase activity" evidence=IDA

GO:0005838 "proteasome regulatory particle" evidence=ISS;IDA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0009987 "cellular process" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0006974 "response to DNA damage stimulus" evidence=IMP

UNIPROTKB|F1NSP7 PSMC1 "26S protease regulatory subunit 4" [Gallus gallus (taxid:9031)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    24 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 83

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    84 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 143

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   144 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 171

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=IEA

UNIPROTKB|F1NTZ4 PSMC1 "26S protease regulatory subunit 4" [Gallus gallus (taxid:9031)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    23 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 82

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    83 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 142

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   143 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 170

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=IEA

UNIPROTKB|A4FUZ3 PSMC1 "Proteasome (Prosome, macropain) 26S subunit, ATPase, 1" [Bos taurus (taxid:9913)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0022624 "proteasome accessory complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|F1PQ40 PSMC1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|P62191 PSMC1 "26S protease regulatory subunit 4" [Homo sapiens (taxid:9606)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0005524 "ATP binding" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0000502 "proteasome complex" evidence=NAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006521 "regulation of cellular amino acid metabolic process" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0034641 "cellular nitrogen compound metabolic process" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

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

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F2Z5J1 PSMC1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0022624 "proteasome accessory complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

MGI|MGI:106054 Psmc1 "protease (prosome, macropain) 26S subunit, ATPase 1" [Mus musculus (taxid:10090)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=ISO

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=IDA

GO:0030163 "protein catabolic process" evidence=IEA

RGD|621097 Psmc1 "proteasome (prosome, macropain) 26S subunit, ATPase, 1" [Rattus norvegicus (taxid:10116)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 133/148 (89%), Positives = 141/148 (95%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA KLP VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006200 "ATP catabolic process" evidence=TAS

GO:0008150 "biological_process" evidence=ND

GO:0016887 "ATPase activity" evidence=TAS

GO:0017025 "TBP-class protein binding" evidence=IPI

GO:0022624 "proteasome accessory complex" evidence=ISO;ISS

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|Q90732 PSMC1 "26S protease regulatory subunit 4" [Gallus gallus (taxid:9031)]

 Score = 692 (248.7 bits), Expect = 3.5e-68, P = 3.5e-68
 Identities = 132/148 (89%), Positives = 140/148 (94%)

Query:    78 YEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQER 137
             YEPP+PTRVGKKK+K KGPDAA K P VTPHT+CRLKLLKLERIKDYLLMEEEFIRNQE+
Sbjct:    25 YEPPVPTRVGKKKKKTKGPDAASKPPLVTPHTQCRLKLLKLERIKDYLLMEEEFIRNQEQ 84

Query:   138 LKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQL 197
             +KP EEK EEERS+VDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKD L
Sbjct:    85 MKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDLL 144

Query:   198 EPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
             EPGCSVLLNHKVHAV+GVL DDTDP+VT
Sbjct:   145 EPGCSVLLNHKVHAVIGVLMDDTDPLVT 172

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	225
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	4e-86
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	3e-32
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	2e-24
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	1e-23
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	8e-23
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	2e-19
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	6e-19
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	8e-19
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	5e-17
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-14
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	1e-14
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-14
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-13
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-13
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	3e-11
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	2e-09
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	5e-08
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	3e-05
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-04
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	0.001
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	0.002
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.004

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score =  261 bits (668), Expect = 4e-86
 Identities = 114/165 (69%), Positives = 139/165 (84%)

Query: 61  GAGSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLER 120
           G G+N   K+ K +KKK E P P    K+K+K KGPDAA KLP+VTP+TKCRL+LLKLER
Sbjct: 6   GQGNNQKDKNKKKEKKKKESPPPPHEIKRKKKRKGPDAASKLPKVTPNTKCRLRLLKLER 65

Query: 121 IKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSV 180
           IKDYLL+EEEFI NQE  KP +EKNE E  +VDDLRG+P+SVGTLEEIID+NHAIVS+SV
Sbjct: 66  IKDYLLLEEEFITNQEAQKPAQEKNEAELKKVDDLRGSPLSVGTLEEIIDENHAIVSSSV 125

Query: 181 GSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
           G E+YV+ILSFVDK+QLEPGCSVLL++K H+VVG+L D+ DP+V+
Sbjct: 126 GPEYYVNILSFVDKEQLEPGCSVLLHNKTHSVVGILLDEVDPLVS 170

Length = 438

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  120 bits (303), Expect = 3e-32
 Identities = 51/140 (36%), Positives = 75/140 (53%), Gaps = 4/140 (2%)

Query: 87  GKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIR-NQERLKPQEEKN 145
                     D     PQ   +     KL  LE+ K  LL+EE+ +     RLK + ++ 
Sbjct: 2   ELDALDEILGDLESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDRL 61

Query: 146 EEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLL 205
            EE   ++ L+  P+ VGT+ E++DD  AIV +S G +  V+ILSFVD+D LEPG  V L
Sbjct: 62  REE---IERLKEPPLIVGTVLEVLDDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVAL 118

Query: 206 NHKVHAVVGVLSDDTDPMVT 225
           N   +++V VL  + DP V+
Sbjct: 119 NRDSYSIVRVLPPEVDPRVS 138

Length = 406

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 99.6 bits (249), Expect = 2e-24
 Identities = 35/45 (77%), Positives = 40/45 (88%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           LD QIQEI+E VELPL +PE +EE+GI PPKGV+LYGPPGTGKTL
Sbjct: 156 LDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTL 200

Length = 406

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score = 97.1 bits (242), Expect = 1e-23
 Identities = 38/45 (84%), Positives = 43/45 (95%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L+ QIQEIKE+VELPLTHPE Y+++GIKPPKGVILYGPPGTGKTL
Sbjct: 188 LEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTL 232

Length = 438

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 94.5 bits (236), Expect = 8e-23
 Identities = 32/45 (71%), Positives = 41/45 (91%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L+ QI+E++E+VELPL  PE +EE+GI+PPKGV+LYGPPGTGKTL
Sbjct: 136 LEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTL 180

Length = 389

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 85.2 bits (211), Expect = 2e-19
 Identities = 33/45 (73%), Positives = 41/45 (91%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           LD+Q QEI+E+VELPLT PE YE++GI PP+GV+LYGPPGTGKT+
Sbjct: 150 LDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTM 194

Length = 398

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 83.7 bits (207), Expect = 6e-19
 Identities = 34/45 (75%), Positives = 42/45 (93%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L+ QI+EI+E+VELPL HPE +EE+GI+PPKGV+LYGPPGTGKTL
Sbjct: 127 LEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTL 171

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 83.7 bits (207), Expect = 8e-19
 Identities = 47/128 (36%), Positives = 78/128 (60%), Gaps = 6/128 (4%)

Query: 97  DAAIKLPQVTPHTKCRL--KLLKLERIKDYLLMEEEFIRN-QERLKPQEEKNEEERSRVD 153
            AA  +   T HT+  L  KL +LE+  ++L ++EE+I+  Q+ LK +  + +EE  R+ 
Sbjct: 4   TAAAAVASSTTHTERDLYEKLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRI- 62

Query: 154 DLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVV 213
             +  P+ +G   E+ID N+ IVS++ GS +YV ILS ++++ L+P  SV L+   HAVV
Sbjct: 63  --QSVPLVIGQFLEMIDSNYGIVSSTSGSNYYVRILSTLNRELLKPNASVALHRHSHAVV 120

Query: 214 GVLSDDTD 221
            +L  + D
Sbjct: 121 DILPPEAD 128

Length = 398

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 78.6 bits (194), Expect = 5e-17
 Identities = 30/45 (66%), Positives = 37/45 (82%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L  QI++I+++VELP  HPE Y E G+KPPKGV+LYGPPG GKTL
Sbjct: 187 LGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTL 231

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 71.8 bits (177), Expect = 1e-14
 Identities = 39/116 (33%), Positives = 66/116 (56%), Gaps = 8/116 (6%)

Query: 117 KLERIKDYLLMEEEFIRNQER----LKPQEEKNEEE----RSRVDDLRGTPMSVGTLEEI 168
           +LE +++     EE IR  E     L+ + EK E E    +S ++ L+  P+ V T+ E+
Sbjct: 2   RLEALEERNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLKSPPLIVATVLEV 61

Query: 169 IDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMV 224
           +DD   +V +S G +  V++  F+D+++L+PG  V LN +  A+V VL  + DP V
Sbjct: 62  LDDGRVVVKSSGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIVEVLPSEKDPRV 117

Length = 389

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 71.8 bits (176), Expect = 1e-14
 Identities = 39/118 (33%), Positives = 65/118 (55%), Gaps = 9/118 (7%)

Query: 108 HTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEE 167
            ++  +++ KLE   +   +E+E IR        E + E  RS ++ LR  P+ VGT+ E
Sbjct: 1   ISELDVRIRKLE--DEKRSLEKEKIR-------LERELERLRSEIERLRSPPLIVGTVLE 51

Query: 168 IIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
           ++DDN  +V +S G    V++ +F+D+  L+PG  V LN +   +V VL    DP+V 
Sbjct: 52  VLDDNRVVVKSSTGPNFVVNVSAFIDRKSLKPGARVALNQQTLTIVDVLPTSKDPLVK 109

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 71.1 bits (174), Expect = 2e-14
 Identities = 29/45 (64%), Positives = 37/45 (82%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L    ++I+E VELP+ HPE +E +GI+PPKGV+LYGPPGTGKTL
Sbjct: 183 LKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTL 227

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 69.2 bits (169), Expect = 1e-13
 Identities = 29/40 (72%), Positives = 37/40 (92%)

Query: 8   QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           QE++E+VE PL HPE +E+MGI+PPKGV+L+GPPGTGKTL
Sbjct: 463 QELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTL 502

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 68.7 bits (168), Expect = 1e-13
 Identities = 26/46 (56%), Positives = 37/46 (80%)

Query: 2   SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
            L+   +E+KE++E PL  PE + ++G++PPKGV+LYGPPGTGKTL
Sbjct: 246 GLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTL 291

Length = 494

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score = 61.9 bits (151), Expect = 3e-11
 Identities = 21/40 (52%), Positives = 29/40 (72%), Gaps = 1/40 (2%)

Query: 8   QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +E+ E V+  L +P  + ++G K PKGV+L GPPGTGKTL
Sbjct: 65  EELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTL 103

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score = 56.2 bits (136), Expect = 2e-09
 Identities = 23/44 (52%), Positives = 31/44 (70%), Gaps = 1/44 (2%)

Query: 4   DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           D   +E+ E V+  L +P+ Y+ +G K PKGV+L GPPGTGKTL
Sbjct: 156 DEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTL 198

Length = 596

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 52.4 bits (126), Expect = 5e-08
 Identities = 22/40 (55%), Positives = 27/40 (67%), Gaps = 1/40 (2%)

Query: 8   QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +E +E V   L  PE +  +G K PKGV+L GPPGTGKTL
Sbjct: 193 EEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTL 231

Length = 638

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score = 43.9 bits (103), Expect = 3e-05
 Identities = 21/40 (52%), Positives = 29/40 (72%), Gaps = 1/40 (2%)

Query: 8   QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +E+ E VE  L  P  ++++G K PKGV++ GPPGTGKTL
Sbjct: 162 EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 200

Length = 644

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 42.1 bits (99), Expect = 1e-04
 Identities = 23/33 (69%), Positives = 30/33 (90%)

Query: 15 ELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          ELPL  PE ++++GI+PPKGV+L+GPPGTGKTL
Sbjct: 1  ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTL 33

Length = 494

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 37.9 bits (88), Expect = 0.001
 Identities = 13/18 (72%), Positives = 15/18 (83%)

Query: 30 KPPKGVILYGPPGTGKTL 47
           PPK ++LYGPPGTGKT 
Sbjct: 17 PPPKNLLLYGPPGTGKTT 34

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 38.5 bits (90), Expect = 0.002
 Identities = 29/91 (31%), Positives = 43/91 (47%), Gaps = 2/91 (2%)

Query: 136 ERLKPQEEKNEEERSRVDDLRGTPMSVGT-LEEIIDDNHAIVSTSVGSEHYVSILSFVDK 194
           E LK   ++  E + ++D L   P + GT L+   DD  A V T+ G    V +   VD 
Sbjct: 22  EALKAARDELAELKEQLDALAQPPSTYGTLLQVATDDRTAEVFTA-GRRMRVGVSPNVDA 80

Query: 195 DQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
            +L PG +V LN  +  V     + T  +VT
Sbjct: 81  AELVPGQTVRLNEALQVVEACDFERTGEIVT 111

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

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

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 12/17 (70%), Positives = 14/17 (82%)

Query: 30 KPPKGVILYGPPGTGKT 46
          KP K ++LYGPPG GKT
Sbjct: 37 KPKKALLLYGPPGVGKT 53

Length = 482

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	225
KOG0726|consensus	440		99.97
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.94
KOG0730|consensus	693		99.91
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.9
KOG0733|consensus	802		99.89
KOG0731|consensus	774		99.89
KOG0736|consensus	953		99.88
KOG0734|consensus	752		99.88
KOG0727|consensus	408		99.87
KOG0726|consensus	440		99.85
KOG0733|consensus	802		99.85
KOG0728|consensus	404		99.84
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.84
KOG0652|consensus	424		99.83
KOG0727|consensus	408		99.82
KOG0735|consensus	952		99.8
KOG0739|consensus	439		99.79
KOG0738|consensus	491		99.76
KOG0651|consensus	388		99.74
KOG0729|consensus	435		99.73
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.73
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.71
KOG0737|consensus	386		99.67
KOG0728|consensus	404		99.65
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.65
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.65
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.62
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.6
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.57
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.56
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.56
KOG0732|consensus	1080		99.54
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.5
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.48
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.47
CHL00206	2281	ycf2 Ycf2; Provisional	99.46
KOG0741|consensus	744		99.45
CHL00195	489	ycf46 Ycf46; Provisional	99.44
CHL00176	638	ftsH cell division protein; Validated	99.44
KOG0743|consensus	457		99.41
KOG0652|consensus	424		99.4
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.39
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.38
KOG0740|consensus	428		99.38
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.35
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.3
KOG0730|consensus	693		99.26
KOG0651|consensus	388		98.96
CHL00181	287	cbbX CbbX; Provisional	98.85
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.77
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.76
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.75
PF00004	132	AAA: ATPase family associated with various cellula	98.71
KOG0729|consensus	435		98.64
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.57
KOG0742|consensus	630		98.57
KOG0744|consensus	423		98.42
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.39
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.35
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.35
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.26
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.2
KOG2004|consensus	906		98.19
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.13
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.0
PRK04195	482	replication factor C large subunit; Provisional	97.99
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.97
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.96
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.9
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.86
KOG0989|consensus	346		97.85
KOG2028|consensus	554		97.85
PRK13342	413	recombination factor protein RarA; Reviewed	97.84
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.83
CHL00095	821	clpC Clp protease ATP binding subunit	97.81
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.77
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.77
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.76
PLN03025	319	replication factor C subunit; Provisional	97.71
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.71
COG0606	490	Predicted ATPase with chaperone activity [Posttran	97.68
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.65
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	97.62
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	97.6
KOG0736|consensus	953		97.58
KOG0735|consensus	952		97.57
PRK12402	337	replication factor C small subunit 2; Reviewed	97.57
smart00382	148	AAA ATPases associated with a variety of cellular	97.56
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	97.55
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	97.54
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.54
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.52
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.52
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.51
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.5
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.47
PHA02544	316	44 clamp loader, small subunit; Provisional	97.47
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.46
PRK10865	857	protein disaggregation chaperone; Provisional	97.45
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.43
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.43
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.4
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.4
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.4
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.36
PRK15455	644	PrkA family serine protein kinase; Provisional	97.35
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.34
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.33
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.33
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.33
KOG0741|consensus	744		97.32
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.28
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.27
PRK13341	725	recombination factor protein RarA/unknown domain f	97.27
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.27
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.26
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	97.25
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.24
PRK06620	214	hypothetical protein; Validated	97.23
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.23
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.22
PRK00131	175	aroK shikimate kinase; Reviewed	97.22
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.22
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.21
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.21
PRK06893	229	DNA replication initiation factor; Validated	97.21
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.2
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.19
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.19
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.18
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.17
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.16
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.16
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.14
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.14
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.13
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.13
PRK06526	254	transposase; Provisional	97.12
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.11
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.11
PRK12377	248	putative replication protein; Provisional	97.1
PHA02244	383	ATPase-like protein	97.09
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.09
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.09
PRK08939	306	primosomal protein DnaI; Reviewed	97.08
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.08
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.07
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.07
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.05
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	97.05
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.04
PRK08084	235	DNA replication initiation factor; Provisional	97.03
PRK08181	269	transposase; Validated	97.02
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.02
PRK08118	167	topology modulation protein; Reviewed	97.01
PRK06835	329	DNA replication protein DnaC; Validated	96.99
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.96
PRK06921	266	hypothetical protein; Provisional	96.95
PRK08116	268	hypothetical protein; Validated	96.95
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.94
CHL00095	821	clpC Clp protease ATP binding subunit	96.92
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	96.92
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.9
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.89
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.88
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.87
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.85
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.85
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.84
PRK13531	498	regulatory ATPase RavA; Provisional	96.84
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.83
PRK07952	244	DNA replication protein DnaC; Validated	96.82
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.82
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.81
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.8
PRK10865	857	protein disaggregation chaperone; Provisional	96.78
KOG1803|consensus	649		96.77
PRK14532	188	adenylate kinase; Provisional	96.76
PHA00729	226	NTP-binding motif containing protein	96.75
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.75
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	96.75
PRK09183	259	transposase/IS protein; Provisional	96.74
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.72
PF13479	213	AAA_24: AAA domain	96.7
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.7
PRK03839	180	putative kinase; Provisional	96.69
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.69
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.68
PRK13947	171	shikimate kinase; Provisional	96.67
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.66
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.65
PRK14531	183	adenylate kinase; Provisional	96.64
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.63
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.63
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.63
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.58
PRK13949	169	shikimate kinase; Provisional	96.58
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.57
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.57
PRK05642	234	DNA replication initiation factor; Validated	96.56
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.56
COG0714	329	MoxR-like ATPases [General function prediction onl	96.54
KOG1969|consensus	877		96.54
KOG1942|consensus	456		96.53
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.53
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.52
PRK07261	171	topology modulation protein; Provisional	96.51
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.51
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.5
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.5
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.49
PF13245	76	AAA_19: Part of AAA domain	96.47
PRK00625	173	shikimate kinase; Provisional	96.46
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.46
PHA02624	647	large T antigen; Provisional	96.45
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.44
PRK12422	445	chromosomal replication initiation protein; Provis	96.43
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.42
KOG3347|consensus	176		96.4
PF07726	131	AAA_3: ATPase family associated with various cellu	96.4
KOG0991|consensus	333		96.4
PRK14527	191	adenylate kinase; Provisional	96.39
PTZ00088	229	adenylate kinase 1; Provisional	96.38
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.38
PRK06217	183	hypothetical protein; Validated	96.37
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.35
PRK08727	233	hypothetical protein; Validated	96.34
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.34
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.33
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.33
PRK07399	314	DNA polymerase III subunit delta'; Validated	96.3
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.3
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.3
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.26
PRK14526	211	adenylate kinase; Provisional	96.22
PLN02200	234	adenylate kinase family protein	96.21
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.21
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.2
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.2
PRK04328	249	hypothetical protein; Provisional	96.2
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.19
PRK14530	215	adenylate kinase; Provisional	96.19
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.18
PRK01184	184	hypothetical protein; Provisional	96.17
PRK14528	186	adenylate kinase; Provisional	96.16
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.14
PRK13948	182	shikimate kinase; Provisional	96.12
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.09
PRK02496	184	adk adenylate kinase; Provisional	96.09
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.08
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	96.07
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.07
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.07
PRK05057	172	aroK shikimate kinase I; Reviewed	96.06
PF05729	166	NACHT: NACHT domain	96.05
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	96.04
PLN02674	244	adenylate kinase	96.03
PRK00279	215	adk adenylate kinase; Reviewed	96.03
PHA02774	613	E1; Provisional	96.02
PRK13765	637	ATP-dependent protease Lon; Provisional	96.02
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.0
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.99
PRK06547	172	hypothetical protein; Provisional	95.97
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.97
PRK08058	329	DNA polymerase III subunit delta'; Validated	95.92
PRK08356	195	hypothetical protein; Provisional	95.91
PRK14738	206	gmk guanylate kinase; Provisional	95.91
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.9
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.9
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	95.9
PRK09087	226	hypothetical protein; Validated	95.86
PRK06067	234	flagellar accessory protein FlaH; Validated	95.86
PRK04040	188	adenylate kinase; Provisional	95.84
PRK13946	184	shikimate kinase; Provisional	95.83
PRK05973	237	replicative DNA helicase; Provisional	95.82
KOG1970|consensus	634		95.82
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.81
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.8
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	95.78
PRK06762	166	hypothetical protein; Provisional	95.77
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.76
PRK03731	171	aroL shikimate kinase II; Reviewed	95.75
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.74
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.71
smart00350	509	MCM minichromosome maintenance proteins.	95.71
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.69
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.68
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.67
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	95.66
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.66
PRK10416	318	signal recognition particle-docking protein FtsY;	95.65
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.61
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.61
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.6
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.59
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.56
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.53
PRK00300	205	gmk guanylate kinase; Provisional	95.53
PRK08233	182	hypothetical protein; Provisional	95.52
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.51
PHA02530	300	pseT polynucleotide kinase; Provisional	95.49
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.48
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.48
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.44
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	95.44
KOG0990|consensus	360		95.41
PLN02459	261	probable adenylate kinase	95.41
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.39
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.39
PRK09354	349	recA recombinase A; Provisional	95.39
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.37
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.34
PRK10536	262	hypothetical protein; Provisional	95.32
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.31
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.31
COG1855	604	ATPase (PilT family) [General function prediction	95.31
PRK05541	176	adenylylsulfate kinase; Provisional	95.3
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.26
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.25
COG4178	604	ABC-type uncharacterized transport system, permeas	95.25
PRK13808	333	adenylate kinase; Provisional	95.24
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.23
PTZ00112	1164	origin recognition complex 1 protein; Provisional	95.22
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.21
TIGR00376	637	DNA helicase, putative. The gene product may repre	95.21
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.2
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.18
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.18
PF13173	128	AAA_14: AAA domain	95.18
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.13
PRK14529	223	adenylate kinase; Provisional	95.12
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.12
PRK09825	176	idnK D-gluconate kinase; Provisional	95.12
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.12
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.11
PRK05707	328	DNA polymerase III subunit delta'; Validated	95.08
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.08
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.06
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.06
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.06
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.03
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.03
PRK14086	617	dnaA chromosomal replication initiation protein; P	94.98
PRK13764	602	ATPase; Provisional	94.97
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	94.96
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	94.95
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	94.94
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.94
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.94
PRK04182	180	cytidylate kinase; Provisional	94.93
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.92
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.92
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	94.9
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	94.9
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	94.89
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.89
PLN03210	1153	Resistant to P. syringae 6; Provisional	94.86
PRK05480	209	uridine/cytidine kinase; Provisional	94.85
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.79
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	94.76
PRK05022	509	anaerobic nitric oxide reductase transcription reg	94.76
PRK10867	433	signal recognition particle protein; Provisional	94.75
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.75
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	94.75
PRK15424	538	propionate catabolism operon regulatory protein Pr	94.7
PRK06696	223	uridine kinase; Validated	94.7
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	94.69
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.67
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.65
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	94.63
PF13555	62	AAA_29: P-loop containing region of AAA domain	94.62
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	94.61
cd01128	249	rho_factor Transcription termination factor rho is	94.6
COG1221	403	PspF Transcriptional regulators containing an AAA-	94.59
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.58
PRK00889	175	adenylylsulfate kinase; Provisional	94.58
PRK11823	446	DNA repair protein RadA; Provisional	94.58
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	94.57
KOG0060|consensus	659		94.52
KOG2680|consensus	454		94.51
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.5
PRK09302	509	circadian clock protein KaiC; Reviewed	94.5
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.5
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	94.5
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.49
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	94.48
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	94.47
PRK14737	186	gmk guanylate kinase; Provisional	94.47
PRK06851	367	hypothetical protein; Provisional	94.45
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.45
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.45
PTZ00035	337	Rad51 protein; Provisional	94.44
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	94.44
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	94.39
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	94.39
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	94.39
PRK14974	336	cell division protein FtsY; Provisional	94.38
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	94.38
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	94.37
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.37
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	94.37
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	94.35
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	94.34
KOG1533|consensus	290		94.34
cd03269	210	ABC_putative_ATPase This subfamily is involved in	94.34
KOG1802|consensus	935		94.34
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.32
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	94.32
PRK13833	323	conjugal transfer protein TrbB; Provisional	94.27
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.26
KOG0745|consensus	564		94.23
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	94.22
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	94.22
KOG2383|consensus	467		94.22
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	94.2
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	94.2
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	94.18
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	94.17
PRK04296	190	thymidine kinase; Provisional	94.14
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	94.12
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	94.12
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.11
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	94.07
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	94.05
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	94.05
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	94.05
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.05
PRK13851	344	type IV secretion system protein VirB11; Provision	94.04
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	94.04
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	94.04
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	94.04
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	94.03
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.03
PRK12338	319	hypothetical protein; Provisional	94.01
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	94.0
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	93.99
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	93.99
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	93.99
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	93.98
PRK14730	195	coaE dephospho-CoA kinase; Provisional	93.98
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	93.96
PF01057	271	Parvo_NS1: Parvovirus non-structural protein NS1;	93.93
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	93.93
PRK08769	319	DNA polymerase III subunit delta'; Validated	93.91
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	93.91
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	93.91
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	93.91
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	93.91
cd03216	163	ABC_Carb_Monos_I This family represents the domain	93.9
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	93.9
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	93.89
PLN02199	303	shikimate kinase	93.89
TIGR00959	428	ffh signal recognition particle protein. This mode	93.89
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	93.89
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	93.88
PRK09376	416	rho transcription termination factor Rho; Provisio	93.87
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	93.86
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	93.86
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	93.85
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	93.84
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	93.81
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	93.81
KOG0064|consensus	728		93.8
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	93.8
cd03234	226	ABCG_White The White subfamily represents ABC tran	93.78
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.77
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	93.76
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	93.76
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	93.75
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	93.75
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	93.74
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	93.73
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	93.72
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	93.71
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.71
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	93.7
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	93.68
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	93.67
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	93.67
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	93.65
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	93.65
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	93.65
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	93.64
PRK04220	301	2-phosphoglycerate kinase; Provisional	93.62
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	93.62
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	93.61
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	93.61
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	93.61
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	93.59
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	93.59
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	93.59
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	93.57
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	93.57
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	93.57
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	93.57
PRK09862	506	putative ATP-dependent protease; Provisional	93.56
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	93.56
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	93.55
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	93.55

>KOG0726|consensus

Probab=99.97  E-value=1.4e-31  Score=226.95  Aligned_cols=157  Identities=90%  Similarity=1.324  Sum_probs=148.3

Q ss_pred             cchhhhhhcCCCCCCccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHH
Q psy7782          69 KDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEE  148 (225)
Q Consensus        69 ~~~f~~a~~~~p~iid~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l  148 (225)
                      +.--+...+++|.|...+|+++++.+|+++++++|++.|.+.|.+++.+++|++++|++|++|++++++++..+...++.
T Consensus        16 ~~dk~eK~~~~~~v~~r~gr~k~~~kGpdAa~klP~V~p~~~C~lrlLk~~RIkDyLLMEEEFI~NQe~~k~~e~~~ee~   95 (440)
T KOG0726|consen   16 KDDKKEKKKYEPPVPTRVGRKKKKGKGPDAASKLPTVTPHTQCKLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKQEEE   95 (440)
T ss_pred             ccccccccccCCCCcchhhhhhhcccCcchhhcCCccccchhHHHHHHHHHHHHHHHHHHHHHHhhccccCCchhhhHHH
Confidence            44445566788889999999988888999999999999999999999999999999999999999999999998888888


Q ss_pred             HHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         149 RSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       149 ~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      +..++.|++.|+.||+++|++||+++||.++.|++|||++.++||++.|+||+.|+||...++||++|.+++||+|+
T Consensus        96 r~~vd~lRGtPmsvg~leEiidd~haivst~~g~e~Yv~IlSfVdKdlLepgcsvll~~k~~avvGvL~d~~dpmv~  172 (440)
T KOG0726|consen   96 RSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEYYVSILSFVDKDLLEPGCSVLLNHKVHAVVGVLQDDTDPMVS  172 (440)
T ss_pred             HhHHHhhcCCccccccHHHHhcCCceEEecccCchheeeeeeeccHhhcCCCCeeeeccccceEEEEeccCCCccce
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999985

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.95  E-value=4.8e-27  Score=213.32  Aligned_cols=154  Identities=71%  Similarity=1.106  Sum_probs=141.9

Q ss_pred             hhhhhhcCCCCCC-ccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHH
Q psy7782          71 DKDKKKKYEPPIP-TRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEER  149 (225)
Q Consensus        71 ~f~~a~~~~p~ii-d~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~  149 (225)
                      --+.-.+++|.+. ..+||+ ++.+|+++++++|.+.|.++|++++.+++++.++|.++.+++..+.++..+++++.+++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (438)
T PTZ00361         16 KKKEKKKKESPPPPHEIKRK-KKRKGPDAASKLPKVTPNTKCRLRLLKLERIKDYLLLEEEFITNQEAQKPAQEKNEAEL   94 (438)
T ss_pred             ccccccccCCCCCcchhhhh-ccccCCCccccCCCcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            3345566778776 556644 44789999999999999999999999999999999999999999988888999999999


Q ss_pred             HHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         150 SRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       150 ~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      +++++++++|+.||+|+|++|++++||++++|++|||++.+++|+++|+||++|+||.++++||++||+++||+|+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~v~l~~~~~~~~~~~~~~~d~~~~  170 (438)
T PTZ00361         95 KKVDDLRGSPLSVGTLEEIIDENHAIVSSSVGPEYYVNILSFVDKEQLEPGCSVLLHNKTHSVVGILLDEVDPLVS  170 (438)
T ss_pred             HHHHHhhCCCcEEEEEEEEeCCCeEEEEeCCCCEEEEeccCcCCHhhCCCCCEEEEcCCCCceEecCccccchhhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999873

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=4.7e-28  Score=210.20  Aligned_cols=90  Identities=44%  Similarity=0.725  Sum_probs=80.5

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC---Ccee--------eccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG---YHYY--------CRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~---~~~~--------~~~~~~~-~~~~   69 (225)
                      ||++++++|+|.|.+||++|++|.++|+.||+|+|||||||||||+||+++|+   +.|+        ..|.|+| .-+|
T Consensus       155 GL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGEGaRlVR  234 (406)
T COG1222         155 GLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVR  234 (406)
T ss_pred             CHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhccchHHHH
Confidence            89999999999999999999999999999999999999999999999985443   5555        5567778 5569


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|+..+||||     |+||.+|-
T Consensus       235 elF~lArekaPsIIFiDEIDAIg~kR~  261 (406)
T COG1222         235 ELFELAREKAPSIIFIDEIDAIGAKRF  261 (406)
T ss_pred             HHHHHHhhcCCeEEEEechhhhhcccc
Confidence            99999999999998     99998886

>KOG0730|consensus

Probab=99.91  E-value=2e-25  Score=205.78  Aligned_cols=138  Identities=29%  Similarity=0.519  Sum_probs=113.4

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCcee--------eccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYY--------CRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~--------~~~~~~~-~~~~   69 (225)
                      ||+++|.+|++.|.||+++|+.|.++|+.+|+|||||||||||||++|+   .+++++|+        ++++|++ ..+|
T Consensus       438 GlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir  517 (693)
T KOG0730|consen  438 GLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIR  517 (693)
T ss_pred             CHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHH
Confidence            5999999999999999999999999999999999999999999999997   44556666        5578888 7889


Q ss_pred             chhhhhhcCCCCCC-----ccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhh
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEK  144 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~  144 (225)
                      ++|++||+.+||||     |++++.|....+                    .-.+|+...|+.|.+.....         
T Consensus       518 ~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~--------------------~v~~RVlsqLLtEmDG~e~~---------  568 (693)
T KOG0730|consen  518 EVFRKARQVAPCIIFFDEIDALAGSRGGSSS--------------------GVTDRVLSQLLTEMDGLEAL---------  568 (693)
T ss_pred             HHHHHHhhcCCeEEehhhHHhHhhccCCCcc--------------------chHHHHHHHHHHHccccccc---------
Confidence            99999999999998     888888862211                    13457777777666644221         


Q ss_pred             HHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCC
Q psy7782         145 NEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGC  201 (225)
Q Consensus       145 ~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~  201 (225)
                                                .+.+||.++|++       ..+|++.|+||.
T Consensus       569 --------------------------k~V~ViAATNRp-------d~ID~ALlRPGR  592 (693)
T KOG0730|consen  569 --------------------------KNVLVIAATNRP-------DMIDPALLRPGR  592 (693)
T ss_pred             --------------------------CcEEEEeccCCh-------hhcCHHHcCCcc
Confidence                                      356888889998       789999999996

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.90  E-value=3.3e-23  Score=180.12  Aligned_cols=125  Identities=37%  Similarity=0.509  Sum_probs=107.8

Q ss_pred             cccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEc
Q psy7782          99 AIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVST  178 (225)
Q Consensus        99 ~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~  178 (225)
                      .+..+.......|..+...++++.+++..+.+....  +...++++++.+++|++++++||++||+|+|++|++++||++
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~e~~~l~~~pl~vg~v~e~id~~~~iVks   91 (406)
T COG1222          14 ESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEA--EGLRLKREVDRLREEIERLKEPPLIVGTVLEVLDDGRAIVKS   91 (406)
T ss_pred             cccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhcchHHHHHHHHHHHHHhcCCCceEEEEEEEcCCceEEEEe
Confidence            334444555567888888888888777765544333  334677899999999999999999999999999999999999


Q ss_pred             cCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         179 SVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       179 ~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      ++|++|+|++.++||+++|+||+||+||.++|+||.+||+++||+|+
T Consensus        92 ~~g~~~vV~i~~~vd~~~L~pG~rVal~~~s~~Iv~vLp~~~Dp~V~  138 (406)
T COG1222          92 STGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLPPEVDPRVS  138 (406)
T ss_pred             CCCCeEEEeccCCcCHHHcCCCCEEEEcCCcceeeeeCCCccCchhh
Confidence            99999999999999999999999999999999999999999999985

>KOG0733|consensus

Probab=99.89  E-value=8.8e-24  Score=193.41  Aligned_cols=139  Identities=22%  Similarity=0.416  Sum_probs=112.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeec--------cCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCR--------GAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~--------~~~~~-~~~~   69 (225)
                      ||++++.+|+..|.+|.++|+.|+.+|+.+|.|||||||||||||+||+   +++|.+|+++        |+|++ .++|
T Consensus       515 aL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESErAVR  594 (802)
T KOG0733|consen  515 ALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESERAVR  594 (802)
T ss_pred             cHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHHHHHH
Confidence            6899999999999999999999999999999999999999999999997   5667888854        66666 8889


Q ss_pred             chhhhhhcCCCCCC-----ccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhh
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEK  144 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~  144 (225)
                      .+|..||..+||||     |++.-+|... +..                   --.|+.+.|+.|.+.....         
T Consensus       595 ~vFqRAR~saPCVIFFDEiDaL~p~R~~~-~s~-------------------~s~RvvNqLLtElDGl~~R---------  645 (802)
T KOG0733|consen  595 QVFQRARASAPCVIFFDEIDALVPRRSDE-GSS-------------------VSSRVVNQLLTELDGLEER---------  645 (802)
T ss_pred             HHHHHhhcCCCeEEEecchhhcCcccCCC-Cch-------------------hHHHHHHHHHHHhcccccc---------
Confidence            99999999999998     7776666521 111                   2246666777666544211         


Q ss_pred             HHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCe
Q psy7782         145 NEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS  202 (225)
Q Consensus       145 ~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~  202 (225)
                                                .+.+||.+||++       ..||+.-|+||..
T Consensus       646 --------------------------~gV~viaATNRP-------DiIDpAiLRPGRl  670 (802)
T KOG0733|consen  646 --------------------------RGVYVIAATNRP-------DIIDPAILRPGRL  670 (802)
T ss_pred             --------------------------cceEEEeecCCC-------cccchhhcCCCcc
Confidence                                      157889999999       7899999999963

>KOG0731|consensus

Probab=99.89  E-value=1.3e-23  Score=198.43  Aligned_cols=89  Identities=38%  Similarity=0.611  Sum_probs=82.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |++++|++|.|+|.+ |++|+.|.++|...|+|+||+||||||||+||+   .++|.||+++++++        | +++|
T Consensus       315 G~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~~asrvr  393 (774)
T KOG0731|consen  315 GVDEAKEELMEFVKF-LKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVGASRVR  393 (774)
T ss_pred             CcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcccchHHHH
Confidence            899999999999999 999999999999999999999999999999997   56669999888777        5 7789


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..||.++||||     |++|++|.
T Consensus       394 ~lf~~ar~~aP~iifideida~~~~r~  420 (774)
T KOG0731|consen  394 DLFPLARKNAPSIIFIDEIDAVGRKRG  420 (774)
T ss_pred             HHHHHhhccCCeEEEeccccccccccc
Confidence            99999999999997     89999884

>KOG0736|consensus

Probab=99.88  E-value=1.2e-23  Score=196.50  Aligned_cols=141  Identities=23%  Similarity=0.471  Sum_probs=110.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCcee--------eccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYY--------CRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~--------~~~~~~~-~~~~   69 (225)
                      ||+++|++|.+.+..||+||++|.. |+.+..|||||||||||||++|+|   ++..+|+        +||+|++ .++|
T Consensus       676 GLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR  754 (953)
T KOG0736|consen  676 GLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVR  754 (953)
T ss_pred             CHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHH
Confidence            8999999999999999999999986 889999999999999999999973   3344454        6677777 8899


Q ss_pred             chhhhhhcCCCCCC-----ccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhh
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEK  144 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~  144 (225)
                      ++|++||..+||||     |.++-+|+..+++  .+-                ++|+...|+.|.+..            
T Consensus       755 ~VFerAR~A~PCVIFFDELDSlAP~RG~sGDS--GGV----------------MDRVVSQLLAELDgl------------  804 (953)
T KOG0736|consen  755 EVFERARSAAPCVIFFDELDSLAPNRGRSGDS--GGV----------------MDRVVSQLLAELDGL------------  804 (953)
T ss_pred             HHHHHhhccCCeEEEeccccccCccCCCCCCc--ccc----------------HHHHHHHHHHHhhcc------------
Confidence            99999999999998     7888888743222  222                246666665444422            


Q ss_pred             HHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCC
Q psy7782         145 NEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGC  201 (225)
Q Consensus       145 ~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~  201 (225)
                                 ...+          .++.+||.++|++       .-+|++.|+||.
T Consensus       805 -----------s~~~----------s~~VFViGATNRP-------DLLDpALLRPGR  833 (953)
T KOG0736|consen  805 -----------SDSS----------SQDVFVIGATNRP-------DLLDPALLRPGR  833 (953)
T ss_pred             -----------cCCC----------CCceEEEecCCCc-------cccChhhcCCCc
Confidence                       1110          1357999999999       789999999996

>KOG0734|consensus

Probab=99.88  E-value=3.4e-23  Score=187.28  Aligned_cols=89  Identities=36%  Similarity=0.550  Sum_probs=80.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |+|+.|++|+|.+.+ |++|+.|.++|=.-|+||||.||||||||+||+++   +|.|||+..+++        | +++|
T Consensus       308 G~DEAK~ELeEiVef-LkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGvGArRVR  386 (752)
T KOG0734|consen  308 GVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVGARRVR  386 (752)
T ss_pred             ChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcccHHHHH
Confidence            899999999999999 99999999999999999999999999999999855   458888665544        7 8889


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|++.|||||     |++|.+|+
T Consensus       387 dLF~aAk~~APcIIFIDEiDavG~kR~  413 (752)
T KOG0734|consen  387 DLFAAAKARAPCIIFIDEIDAVGGKRN  413 (752)
T ss_pred             HHHHHHHhcCCeEEEEechhhhcccCC
Confidence            99999999999998     88998886

>KOG0727|consensus

Probab=99.87  E-value=2.7e-23  Score=173.84  Aligned_cols=90  Identities=43%  Similarity=0.724  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc-----------CCceeeccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL-----------GYHYYCRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~-----------~~~~~~~~~~~~-~~~~   69 (225)
                      ||+-+|+++++.+.+||.+.++|+..|+.||+|+|||||||||||+||++++           |+.|+..+.|+| .-+|
T Consensus       159 gld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgegprmvr  238 (408)
T KOG0727|consen  159 GLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEGPRMVR  238 (408)
T ss_pred             cchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccCcHHHH
Confidence            7899999999999999999999999999999999999999999999997444           456667777888 7779


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|++++|+||     |+|+.+|=
T Consensus       239 dvfrlakenapsiifideidaiatkrf  265 (408)
T KOG0727|consen  239 DVFRLAKENAPSIIFIDEIDAIATKRF  265 (408)
T ss_pred             HHHHHHhccCCcEEEeehhhhHhhhhc
Confidence            99999999999997     77776663

>KOG0726|consensus

Probab=99.85  E-value=5.3e-22  Score=168.81  Aligned_cols=90  Identities=52%  Similarity=0.770  Sum_probs=81.6

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC-----------CceeeccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG-----------YHYYCRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~-----------~~~~~~~~~~~-~~~~   69 (225)
                      |++.++++|++.+.+||.||+.|.++|+.||+|++|||+||||||+||+++++           +.++..+.|+| .-+|
T Consensus       189 Gle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvR  268 (440)
T KOG0726|consen  189 GLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVR  268 (440)
T ss_pred             cHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHH
Confidence            79999999999999999999999999999999999999999999999987666           44456677888 7779


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|+.|..+||+|+     |+||-+|=
T Consensus       269 qlF~vA~e~apSIvFiDEIdAiGtKRy  295 (440)
T KOG0726|consen  269 ELFRVAEEHAPSIVFIDEIDAIGTKRY  295 (440)
T ss_pred             HHHHHHHhcCCceEEeehhhhhccccc
Confidence            99999999999996     88898875

>KOG0733|consensus

Probab=99.85  E-value=7.3e-22  Score=180.93  Aligned_cols=89  Identities=31%  Similarity=0.568  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC------C---CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS------N---SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~------~---~~~~   69 (225)
                      ||++...+|.+.+.. +++|+.|..+|+.||+|+|||||||||||+||++   ++|.||+++++.+      |   .++|
T Consensus       194 G~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGESEkkiR  272 (802)
T KOG0733|consen  194 GLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIR  272 (802)
T ss_pred             ChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcccHHHHH
Confidence            899999999999999 9999999999999999999999999999999975   4559999887665      3   5569


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|+.|+.++|||+     |+|+-+|.
T Consensus       273 elF~~A~~~aPcivFiDeIDAI~pkRe  299 (802)
T KOG0733|consen  273 ELFDQAKSNAPCIVFIDEIDAITPKRE  299 (802)
T ss_pred             HHHHHHhccCCeEEEeecccccccchh
Confidence            99999999999996     88887775

>KOG0728|consensus

Probab=99.84  E-value=1.6e-21  Score=163.19  Aligned_cols=91  Identities=40%  Similarity=0.652  Sum_probs=79.1

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---CCceeec--------cCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---GYHYYCR--------GAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~~~~~~~--------~~~~~-~~~~   69 (225)
                      ||+.++++|++.+.+|.+||++|..+|+..|+|+|||||||||||++|++++   .+.|+.+        +.|+| .-+|
T Consensus       151 gLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igegsrmvr  230 (404)
T KOG0728|consen  151 GLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEGSRMVR  230 (404)
T ss_pred             cHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhhHHHHH
Confidence            7999999999999999999999999999999999999999999999997433   3555544        55557 4459


Q ss_pred             chhhhhhcCCCCCC-----ccccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRK   92 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~   92 (225)
                      ++|-.||++||+||     |.||..|..
T Consensus       231 elfvmarehapsiifmdeidsigs~r~e  258 (404)
T KOG0728|consen  231 ELFVMAREHAPSIIFMDEIDSIGSSRVE  258 (404)
T ss_pred             HHHHHHHhcCCceEeeeccccccccccc
Confidence            99999999999998     888988874

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.84  E-value=2.4e-21  Score=179.88  Aligned_cols=90  Identities=37%  Similarity=0.625  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccC--------CCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGA--------GSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~--------~~~-~~~~   69 (225)
                      |.+++|+++.+.|.+ |++|..|..+|...|+|+||+||||||||++|+++   ++.|||++++        |.| +.+|
T Consensus       154 G~dEakeel~EiVdf-Lk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVGvGAsRVR  232 (596)
T COG0465         154 GVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVR  232 (596)
T ss_pred             CcHHHHHHHHHHHHH-HhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcCCCcHHHH
Confidence            789999999999999 99999999999999999999999999999999844   4466665554        447 8889


Q ss_pred             chhhhhhcCCCCCC-----ccccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRK   92 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~   92 (225)
                      ++|.+|+++|||||     |++||.|+.
T Consensus       233 dLF~qAkk~aP~IIFIDEiDAvGr~Rg~  260 (596)
T COG0465         233 DLFEQAKKNAPCIIFIDEIDAVGRQRGA  260 (596)
T ss_pred             HHHHHhhccCCCeEEEehhhhcccccCC
Confidence            99999999999997     999999973

>KOG0652|consensus

Probab=99.83  E-value=2e-21  Score=163.39  Aligned_cols=90  Identities=42%  Similarity=0.658  Sum_probs=83.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc-----------cccCCceeeccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS-----------PALGYHYYCRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~-----------~~~~~~~~~~~~~~~-~~~~   69 (225)
                      |++.++++|.+.+.+|+.|++.|..+|+.||+|+|+|||||||||++|+           ..+|..++.|+.|+| .-+|
T Consensus       175 GldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfIGdGAkLVR  254 (424)
T KOG0652|consen  175 GLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGDGAKLVR  254 (424)
T ss_pred             cHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhhcchHHHHH
Confidence            8999999999999999999999999999999999999999999999996           456677789999999 6679


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.|..|++.+||||     |+||.+|-
T Consensus       255 DAFaLAKEkaP~IIFIDElDAIGtKRf  281 (424)
T KOG0652|consen  255 DAFALAKEKAPTIIFIDELDAIGTKRF  281 (424)
T ss_pred             HHHHHhhccCCeEEEEechhhhccccc
Confidence            99999999999998     89998875

>KOG0727|consensus

Probab=99.82  E-value=1.6e-20  Score=157.30  Aligned_cols=115  Identities=30%  Similarity=0.542  Sum_probs=107.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEee
Q psy7782         109 TKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSI  188 (225)
Q Consensus       109 ~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v  188 (225)
                      ..-+.+..++|+..+++.+++++++.+.+  .+++|....++|++++++.|+.+|+|+|.+|.+++||.+++|..|||.+
T Consensus        28 ~dly~r~k~le~~le~l~vqe~yik~e~~--~lkre~~~aqeevkriqsvplvigqfle~vdqnt~ivgsttgsny~vri  105 (408)
T KOG0727|consen   28 EDLYVRYKKLERELELLEVQEDYIKDEQR--NLKRELLHAQEEVKRIQSVPLVIGQFLEAVDQNTAIVGSTTGSNYYVRI  105 (408)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhccchHHHHHHHhhhccCceeecccCCceEEee
Confidence            36677888999999999999999877654  6888999999999999999999999999999999999999999999999


Q ss_pred             cCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         189 LSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       189 ~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      .+.+|++.|||+++|+||+++.++|++||++.|++++
T Consensus       106 lstidrellkps~svalhrhsnalvdvlppeadssi~  142 (408)
T KOG0727|consen  106 LSTIDRELLKPSASVALHRHSNALVDVLPPEADSSIS  142 (408)
T ss_pred             hhhhhHHHcCCccchhhhhcccceeeccCCccccccc
Confidence            9999999999999999999999999999999999875

>KOG0735|consensus

Probab=99.80  E-value=5e-20  Score=171.20  Aligned_cols=139  Identities=24%  Similarity=0.377  Sum_probs=110.2

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      ||.++++.|++.+.||-++|.+|...+++.+.|||||||||||||++|.   +.++..|+++.+.+        + .++|
T Consensus       671 g~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR  750 (952)
T KOG0735|consen  671 GLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVR  750 (952)
T ss_pred             cHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHH
Confidence            8999999999999999999999999999999999999999999999996   55667888776655        3 6679


Q ss_pred             chhhhhhcCCCCCC-----ccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhh
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEK  144 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~  144 (225)
                      ++|+.|+..+|||+     |.++-+|+    .++  +-              -.+|+.+.++.+.+..            
T Consensus       751 ~lF~rA~~a~PCiLFFDEfdSiAPkRG----hDs--TG--------------VTDRVVNQlLTelDG~------------  798 (952)
T KOG0735|consen  751 DLFERAQSAKPCILFFDEFDSIAPKRG----HDS--TG--------------VTDRVVNQLLTELDGA------------  798 (952)
T ss_pred             HHHHHhhccCCeEEEeccccccCcccC----CCC--CC--------------chHHHHHHHHHhhccc------------
Confidence            99999999999998     67777764    222  11              2346666555444422            


Q ss_pred             HHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCe
Q psy7782         145 NEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS  202 (225)
Q Consensus       145 ~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~  202 (225)
                                            |-+ +|.+|+.+++++       ..+|++.|+||..
T Consensus       799 ----------------------Egl-~GV~i~aaTsRp-------dliDpALLRpGRl  826 (952)
T KOG0735|consen  799 ----------------------EGL-DGVYILAATSRP-------DLIDPALLRPGRL  826 (952)
T ss_pred             ----------------------ccc-ceEEEEEecCCc-------cccCHhhcCCCcc
Confidence                                  111 367888888888       7799999999963

>KOG0739|consensus

Probab=99.79  E-value=2.2e-20  Score=159.38  Aligned_cols=99  Identities=23%  Similarity=0.455  Sum_probs=84.1

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~~   69 (225)
                      ||+..|++|++.|++|+++|++|... ..|++||||||||||||+.||+   .+++..||+++.++      |   .-++
T Consensus       137 GLE~AKeALKEAVILPIKFPqlFtGk-R~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGESEkLVk  215 (439)
T KOG0739|consen  137 GLEGAKEALKEAVILPIKFPQLFTGK-RKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVK  215 (439)
T ss_pred             cchhHHHHHHhheeecccchhhhcCC-CCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhccHHHHHH
Confidence            89999999999999999999999974 5789999999999999999997   67889999998887      4   3358


Q ss_pred             chhhhhhcCCCCCC-----ccccccccccCCCCccccC
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAIKL  102 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~~l  102 (225)
                      ++|+.||++.|+||     |.++.+|. .++++++.++
T Consensus       216 nLFemARe~kPSIIFiDEiDslcg~r~-enEseasRRI  252 (439)
T KOG0739|consen  216 NLFEMARENKPSIIFIDEIDSLCGSRS-ENESEASRRI  252 (439)
T ss_pred             HHHHHHHhcCCcEEEeehhhhhccCCC-CCchHHHHHH
Confidence            99999999999998     66666665 3555555553

>KOG0738|consensus

Probab=99.76  E-value=1.3e-19  Score=159.07  Aligned_cols=99  Identities=25%  Similarity=0.421  Sum_probs=84.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      .||.++|+.|+|.|.+|+..|+.|+.+ ..|++|+|++||||||||+||+   .++|..||.++.+.      |   +-+
T Consensus       215 agl~~AK~lL~EAVvlPi~mPe~F~Gi-rrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKwRGeSEKlv  293 (491)
T KOG0738|consen  215 AGLHEAKKLLKEAVVLPIWMPEFFKGI-RRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRGESEKLV  293 (491)
T ss_pred             cchHHHHHHHHHHHhhhhhhHHHHhhc-ccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhhccchHHHH
Confidence            489999999999999999999999985 5899999999999999999997   77899999888776      3   334


Q ss_pred             cchhhhhhcCCCCCC-----ccccccccccCCCCccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKRKAKGPDAAI  100 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~~~~g~~~~~  100 (225)
                      |=+|+.||.+||++|     |+++.+|+...+.+++.
T Consensus       294 RlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSR  330 (491)
T KOG0738|consen  294 RLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASR  330 (491)
T ss_pred             HHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHH
Confidence            899999999999997     77788887554444433

>KOG0651|consensus

Probab=99.74  E-value=7.9e-19  Score=150.41  Aligned_cols=89  Identities=39%  Similarity=0.675  Sum_probs=79.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |+.++..++.+.+..|+.+|++|.+.|+.+|+|++||||||||||++|+   +-+|++|+-+..|.        . .-+|
T Consensus       136 gl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGEsaRlIR  215 (388)
T KOG0651|consen  136 GLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGESARLIR  215 (388)
T ss_pred             ChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcccHHHHHH
Confidence            7889999999999999999999999999999999999999999999997   66788888776655        3 4459


Q ss_pred             chhhhhhcCCCCCC-----ccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +.|..|+...||||     |++|-|+
T Consensus       216 emf~yA~~~~pciifmdeiDAigGRr  241 (388)
T KOG0651|consen  216 DMFRYAREVIPCIIFMDEIDAIGGRR  241 (388)
T ss_pred             HHHHHHhhhCceEEeehhhhhhccEE
Confidence            99999999999997     8887776

>KOG0729|consensus

Probab=99.73  E-value=7.5e-19  Score=148.28  Aligned_cols=90  Identities=36%  Similarity=0.594  Sum_probs=78.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC---Ccee--------eccCCCC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG---YHYY--------CRGAGSN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~---~~~~--------~~~~~~~-~~~~   69 (225)
                      |..++++.|++.+..||.+|+.|..+|+.||+|+|||||||||||+.|+++++   +.|+        ..|+|+| .-+|
T Consensus       181 gckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvr  260 (435)
T KOG0729|consen  181 GCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVR  260 (435)
T ss_pred             chHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHH
Confidence            67899999999999999999999999999999999999999999999986655   3444        5577778 5569


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|+.||...-|||     |+||-.|=
T Consensus       261 elf~martkkaciiffdeidaiggarf  287 (435)
T KOG0729|consen  261 ELFEMARTKKACIIFFDEIDAIGGARF  287 (435)
T ss_pred             HHHHHhcccceEEEEeeccccccCccc
Confidence            99999999999998     88887664

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.73  E-value=3.7e-17  Score=147.57  Aligned_cols=103  Identities=30%  Similarity=0.484  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCC
Q psy7782         122 KDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGC  201 (225)
Q Consensus       122 ~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~  201 (225)
                      .+...++.++..+..+++++++++++++++++++++||+.+|+|+|++|++++||++++|++|+|++.+.+|++.|+||+
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~  108 (398)
T PTZ00454         29 KELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQSVPLVIGQFLEMIDSNYGIVSSTSGSNYYVRILSTLNRELLKPNA  108 (398)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEEcCCEEEEEcCCCCEEEEecccccCHhhCCCCC
Confidence            34455566666677777889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEecCCcceeeeccCCCCCCCC
Q psy7782         202 SVLLNHKVHAVVGVLSDDTDPMV  224 (225)
Q Consensus       202 ~V~ln~~~~~Iv~vLp~~~D~~v  224 (225)
                      +|++|.++++++.+||++.||+|
T Consensus       109 ~v~~~~~~~~~~~~l~~~~~~~~  131 (398)
T PTZ00454        109 SVALHRHSHAVVDILPPEADSSI  131 (398)
T ss_pred             EEEeeccchhHHHhccccccchh
Confidence            99999999999999999999976

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.71  E-value=4.7e-18  Score=157.53  Aligned_cols=90  Identities=33%  Similarity=0.654  Sum_probs=79.1

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~--------~-~~~~   69 (225)
                      ||+++++.+++.+.+|+.+++.|...++.+++|+|||||||||||++|+++   ++.+|+++..++        . ++++
T Consensus       246 gl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGesek~ir  325 (494)
T COG0464         246 GLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIR  325 (494)
T ss_pred             cHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHHHHHH
Confidence            799999999999999999999999999999999999999999999999844   458888665544        3 6679


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|++.+||||     |.+...|.
T Consensus       326 ~~F~~A~~~~p~iiFiDEiDs~~~~r~  352 (494)
T COG0464         326 ELFEKARKLAPSIIFIDEIDSLASGRG  352 (494)
T ss_pred             HHHHHHHcCCCcEEEEEchhhhhccCC
Confidence            99999999999998     77777665

>KOG0737|consensus

Probab=99.67  E-value=2.6e-18  Score=150.11  Aligned_cols=100  Identities=29%  Similarity=0.524  Sum_probs=81.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcC-CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      ||+++++++++.|.+|+++|++|...+ +.+++|||||||||||||++|+   .++|.+|+++.++.      |   +-+
T Consensus        96 gLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfgE~eKlv  175 (386)
T KOG0737|consen   96 GLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFGEAQKLV  175 (386)
T ss_pred             chHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhHHHHHHHH
Confidence            799999999999999999999997544 5689999999999999999997   67889999998886      3   345


Q ss_pred             cchhhhhhcCCCCCC-----ccc-cccccccCCCCccccCC
Q psy7782          69 KDDKDKKKKYEPPIP-----TRV-GKKKRKAKGPDAAIKLP  103 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~i-gk~r~~~~g~~~~~~l~  103 (225)
                      +.+|..|.+.+||||     |.+ |.|  ...+.++..++.
T Consensus       176 ~AvFslAsKl~P~iIFIDEvds~L~~R--~s~dHEa~a~mK  214 (386)
T KOG0737|consen  176 KAVFSLASKLQPSIIFIDEVDSFLGQR--RSTDHEATAMMK  214 (386)
T ss_pred             HHHHhhhhhcCcceeehhhHHHHHhhc--ccchHHHHHHHH
Confidence            899999999999998     333 444  245555555543

>KOG0728|consensus

Probab=99.65  E-value=2.4e-16  Score=132.24  Aligned_cols=113  Identities=19%  Similarity=0.262  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEee
Q psy7782         113 LKLLKLERIKDYLLMEEEFI----RNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSI  188 (225)
Q Consensus       113 lr~~~le~~~~~l~~~~~~~----~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v  188 (225)
                      ++.++.+++.+....-.+..    +++.+.++++.++.-+++|++.|+.|+.+||+|++.+++++++|+.....+|+|.+
T Consensus        18 ~~~y~~~ki~~~~~~v~~kt~nlrrleaqrneln~kvr~lreel~~lqe~gsyvgev~k~m~k~kVLVKvhpegKyvvdv   97 (404)
T KOG0728|consen   18 LRQYYLQKIEELQLQVAEKTQNLRRLEAQRNELNAKVRLLREELQLLQEPGSYVGEVVKAMGKKKVLVKVHPEGKYVVDV   97 (404)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCcchHHHHHHhcCcceEEEEEcCCCcEEEec
Confidence            78888899888765555443    34555567777888899999999999999999999999999999999999999999


Q ss_pred             cCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         189 LSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       189 ~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      ++.+|..+++||.||+|.+++|++.++||+.+||+||
T Consensus        98 ~k~i~i~~~~~~~rVaLR~dsY~lhkiLpnKvDpLVs  134 (404)
T KOG0728|consen   98 DKNIDISDVTPSSRVALRNDSYTLHKILPNKVDPLVS  134 (404)
T ss_pred             cCCCcHhhcCCcceEEEeccchHHHHhcccccchhhH
Confidence            9999999999999999999999999999999999986

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.65  E-value=2.1e-17  Score=138.93  Aligned_cols=87  Identities=25%  Similarity=0.433  Sum_probs=73.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccC--------CCC-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGA--------GSN-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~--------~~~-~~~   68 (225)
                      ||.++.|..-.-.+.+ |.+|+.|..|   .|+.+|||||||||||++|++.   +..||+.+.+        |+| ..+
T Consensus       124 iGqEeAK~kcrli~~y-LenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGdgar~I  199 (368)
T COG1223         124 IGQEEAKRKCRLIMEY-LENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRI  199 (368)
T ss_pred             hchHHHHHHHHHHHHH-hhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHHHHH
Confidence            6889999887777777 9999999886   6899999999999999999854   5589988864        445 667


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|+.|++.||||+     |+||-.|+
T Consensus       200 hely~rA~~~aPcivFiDE~DAiaLdRr  227 (368)
T COG1223         200 HELYERARKAAPCIVFIDELDAIALDRR  227 (368)
T ss_pred             HHHHHHHHhcCCeEEEehhhhhhhhhhh
Confidence            999999999999997     88887765

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.65  E-value=1.4e-16  Score=154.19  Aligned_cols=91  Identities=38%  Similarity=0.684  Sum_probs=78.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccC--------CCC-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGA--------GSN-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~--------~~~-~~~   68 (225)
                      .|++++++.|.+.+.+|+++++.|..+|+.+++|+|||||||||||++|+   .+++.+|+.+..        |++ ..+
T Consensus       456 ~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese~~i  535 (733)
T TIGR01243       456 GGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAI  535 (733)
T ss_pred             ccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHHHHH
Confidence            48999999999999999999999999999999999999999999999997   455788886654        444 567


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|..|++.+||||     |.++.+|+
T Consensus       536 ~~~f~~A~~~~p~iifiDEid~l~~~r~  563 (733)
T TIGR01243       536 REIFRKARQAAPAIIFFDEIDAIAPARG  563 (733)
T ss_pred             HHHHHHHHhcCCEEEEEEChhhhhccCC
Confidence            999999999999997     56665553

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.62  E-value=6.6e-17  Score=145.92  Aligned_cols=90  Identities=42%  Similarity=0.689  Sum_probs=76.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeecc--------CCCC-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRG--------AGSN-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~--------~~~~-~~~   68 (225)
                      .|++.++++|++.+.+|+.+|+.|..+|+.+++|+|||||||||||++|++.   .+.+|+.+.        .|++ ..+
T Consensus       148 gGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge~~~~l  227 (398)
T PTZ00454        148 GGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMV  227 (398)
T ss_pred             CCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcchhHHHH
Confidence            4899999999999999999999999999999999999999999999999744   456666554        3444 456


Q ss_pred             cchhhhhhcCCCCCC-----ccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +++|..|+..+|||+     |.++.+|
T Consensus       228 r~lf~~A~~~~P~ILfIDEID~i~~~r  254 (398)
T PTZ00454        228 RDVFRLARENAPSIIFIDEVDSIATKR  254 (398)
T ss_pred             HHHHHHHHhcCCeEEEEECHhhhcccc
Confidence            899999999999997     6666554

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.60  E-value=4.7e-16  Score=143.68  Aligned_cols=90  Identities=37%  Similarity=0.644  Sum_probs=71.2

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC-------------Cceeecc-------
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG-------------YHYYCRG-------   61 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~-------------~~~~~~~-------   61 (225)
                      |++++++.+++.+.+|+.+|++|..+|+.+++|+|||||||||||++|+++++             ..|+.+.       
T Consensus       186 Gl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~k  265 (512)
T TIGR03689       186 GLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNK  265 (512)
T ss_pred             ChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhccc
Confidence            79999999999999999999999999999999999999999999999974433             2233332       


Q ss_pred             -CCCC-CCccchhhhhhcC----CCCCC-----cccccccc
Q psy7782          62 -AGSN-SDKKDDKDKKKKY----EPPIP-----TRVGKKKR   91 (225)
Q Consensus        62 -~~~~-~~~~~~f~~a~~~----~p~ii-----d~igk~r~   91 (225)
                       .|++ ..++.+|+.|+..    .||||     |.+.++|.
T Consensus       266 yvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~  306 (512)
T TIGR03689       266 YVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRG  306 (512)
T ss_pred             ccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccC
Confidence             2333 4457899988875    69997     66665553

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.57  E-value=1.5e-15  Score=140.88  Aligned_cols=90  Identities=34%  Similarity=0.583  Sum_probs=77.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++++.+.+.+ +++++.|..+|..+++|+|||||||||||++|+   ..++.+|+.++.++        + +.+
T Consensus        58 ~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~~~~~l  136 (495)
T TIGR01241        58 AGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRV  136 (495)
T ss_pred             CCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhcccHHHH
Confidence            4899999999999887 999999999999999999999999999999997   45668888776543        3 567


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|+.|+.++|||+     |.++.++.
T Consensus       137 ~~~f~~a~~~~p~Il~iDEid~l~~~r~  164 (495)
T TIGR01241       137 RDLFEQAKKNAPCIIFIDEIDAVGRQRG  164 (495)
T ss_pred             HHHHHHHHhcCCCEEEEechhhhhhccc
Confidence            899999999999997     66666553

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.56  E-value=1e-15  Score=138.06  Aligned_cols=91  Identities=38%  Similarity=0.649  Sum_probs=77.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .|+++++++|.+.+.+|+.+|+.|..+|+.+++|+|||||||||||++|++   .++.+|+.+..++        + ..+
T Consensus       134 ~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~~~~~i  213 (389)
T PRK03992        134 GGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLV  213 (389)
T ss_pred             CCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccchHHHH
Confidence            389999999999999999999999999999999999999999999999974   4467787765544        3 445


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|+.|+..+||||     |.++.+|.
T Consensus       214 ~~~f~~a~~~~p~IlfiDEiD~l~~~r~  241 (389)
T PRK03992        214 RELFELAREKAPSIIFIDEIDAIAAKRT  241 (389)
T ss_pred             HHHHHHHHhcCCeEEEEechhhhhcccc
Confidence            789999999999986     66665543

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.56  E-value=8.2e-16  Score=140.05  Aligned_cols=89  Identities=47%  Similarity=0.756  Sum_probs=75.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---CCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---GYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~~~~~~~~~~~--------~-~~~~   69 (225)
                      |+++++++|.+.+.+|+.+|++|..+|+.+++|+|||||||||||++|++++   +.+|+.+..++        + ..++
T Consensus       187 Gl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge~~~~vr  266 (438)
T PTZ00361        187 GLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVR  266 (438)
T ss_pred             CHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcchHHHHHH
Confidence            8999999999999999999999999999999999999999999999998544   46677665443        3 3468


Q ss_pred             chhhhhhcCCCCCC-----ccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      ++|..|+..+|||+     |.++.+|
T Consensus       267 ~lF~~A~~~~P~ILfIDEID~l~~kR  292 (438)
T PTZ00361        267 ELFRVAEENAPSIVFIDEIDAIGTKR  292 (438)
T ss_pred             HHHHHHHhCCCcEEeHHHHHHHhccC
Confidence            99999999999997     6666554

>KOG0732|consensus

Probab=99.54  E-value=3.4e-15  Score=145.16  Aligned_cols=86  Identities=33%  Similarity=0.570  Sum_probs=74.9

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC----------------CceeeccCCCC
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG----------------YHYYCRGAGSN   65 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~----------------~~~~~~~~~~~   65 (225)
                      ||++++..|++.|..||.+|+.|..+++.||+|+|||||||||||+.|++.++                ...++.++|+.
T Consensus       269 gl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~lskwvgEa  348 (1080)
T KOG0732|consen  269 GLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCLSKWVGEA  348 (1080)
T ss_pred             cHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhhccccCcH
Confidence            79999999999999999999999999999999999999999999999874433                44556666665


Q ss_pred             -CCccchhhhhhcCCCCCC--cccc
Q psy7782          66 -SDKKDDKDKKKKYEPPIP--TRVG   87 (225)
Q Consensus        66 -~~~~~~f~~a~~~~p~ii--d~ig   87 (225)
                       ...|-+|+.|++..|+||  |.|.
T Consensus       349 ERqlrllFeeA~k~qPSIIffdeId  373 (1080)
T KOG0732|consen  349 ERQLRLLFEEAQKTQPSIIFFDEID  373 (1080)
T ss_pred             HHHHHHHHHHHhccCceEEeccccc
Confidence             556899999999999999  6663

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.50  E-value=1.2e-13  Score=127.89  Aligned_cols=94  Identities=28%  Similarity=0.330  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEE-ecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeE
Q psy7782         125 LLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEI-IDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSV  203 (225)
Q Consensus       125 l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~-~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V  203 (225)
                      ..+..++.++...++++++++..+++++++|.+||+++||+++. .+++.+.| .++|++|+|.++|.||.+.|+||++|
T Consensus        11 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~v-~~~g~~~~~~~~~~~~~~~l~~g~~v   89 (512)
T TIGR03689        11 SSLGARNAKLAELLKAARDKLSKLKSQLEQLAQPPSTYGTFLQTAIDDETAEV-FTAGRRMRVTVSPNVNAAELVPGQTV   89 (512)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEEeccCCCeEEE-EeCCceEEEEeCCCCCHHHCCCCCEE
Confidence            44567888888899999999999999999999999999999999 88889999 89999999999999999999999999


Q ss_pred             EecCCcceeeeccCCCC
Q psy7782         204 LLNHKVHAVVGVLSDDT  220 (225)
Q Consensus       204 ~ln~~~~~Iv~vLp~~~  220 (225)
                      .||+ ++.||+.++++.
T Consensus        90 ~l~e-~~~~v~~~~~~~  105 (512)
T TIGR03689        90 RLNE-ALQVVEARDFET  105 (512)
T ss_pred             EECC-cceeeccCCCCC
Confidence            9999 999999988754

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.48  E-value=3.9e-13  Score=120.23  Aligned_cols=102  Identities=33%  Similarity=0.557  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCe
Q psy7782         123 DYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS  202 (225)
Q Consensus       123 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~  202 (225)
                      ....++.++.....+....+++++++++++++++.+|+.+|+|++.++++.++|++++|.+|++++.++++++.|+||++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~   86 (364)
T TIGR01242         7 RIRKLEDEKRSLEKEKIRLERELERLRSEIERLRSPPLIVGTVLEVLDDNRVVVKSSTGPNFVVNVSAFIDRKSLKPGAR   86 (364)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeEEEEEEEEecCCEEEEEeCCCCEEEEeccccCCHhHCCCCCE
Confidence            34455666666677777899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCcceeeeccCCCCCCCC
Q psy7782         203 VLLNHKVHAVVGVLSDDTDPMV  224 (225)
Q Consensus       203 V~ln~~~~~Iv~vLp~~~D~~v  224 (225)
                      |+++..+++++.+||...||.+
T Consensus        87 v~~~~~~~~~~~~l~~~~~~~~  108 (364)
T TIGR01242        87 VALNQQTLTIVDVLPTSKDPLV  108 (364)
T ss_pred             EEEcCCcceEEeeccccccccc
Confidence            9999999999999999999875

Many proteins may score above the trusted cutoff because an internal

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.47  E-value=2e-14  Score=128.61  Aligned_cols=90  Identities=42%  Similarity=0.683  Sum_probs=75.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .|++++++.|.+++..|+.+++.|..+|+.+++|+|||||||||||++|++   ..+.+|+.+..++        + ..+
T Consensus       125 ~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~~~~i  204 (364)
T TIGR01242       125 GGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLV  204 (364)
T ss_pred             CChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHHHHHH
Confidence            489999999999999999999999999999999999999999999999974   3456777665433        2 345


Q ss_pred             cchhhhhhcCCCCCC-----ccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +.+|+.|+..+|||+     |.++.++
T Consensus       205 ~~~f~~a~~~~p~il~iDEiD~l~~~~  231 (364)
T TIGR01242       205 REIFELAKEKAPSIIFIDEIDAIAAKR  231 (364)
T ss_pred             HHHHHHHHhcCCcEEEhhhhhhhcccc
Confidence            789999999999986     5565554

Many proteins may score above the trusted cutoff because an internal

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.46  E-value=2.3e-14  Score=145.26  Aligned_cols=74  Identities=14%  Similarity=0.191  Sum_probs=58.0

Q ss_pred             cccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC----------------------------
Q psy7782          16 LPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS----------------------------   64 (225)
Q Consensus        16 ~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~----------------------------   64 (225)
                      .|......+.++|+.+|+||||+||||||||+||+   +.+++||+.+++++                            
T Consensus      1614 ~~s~~kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~ 1693 (2281)
T CHL00206       1614 FPSHGKPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDI 1693 (2281)
T ss_pred             CcccCcCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhccccccccccccccccccccccccc
Confidence            34445567788999999999999999999999997   55668888665432                            


Q ss_pred             ---------------------C---CCccchhhhhhcCCCCCC-----cccccc
Q psy7782          65 ---------------------N---SDKKDDKDKKKKYEPPIP-----TRVGKK   89 (225)
Q Consensus        65 ---------------------~---~~~~~~f~~a~~~~p~ii-----d~igk~   89 (225)
                                           +   ..++.+|+.|++++||||     |++|.+
T Consensus      1694 ~~~~~~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ 1747 (2281)
T CHL00206       1694 DRDLDTELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVN 1747 (2281)
T ss_pred             ccccchhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCC
Confidence                                 1   125779999999999997     777754

>KOG0741|consensus

Probab=99.45  E-value=5.7e-14  Score=127.81  Aligned_cols=86  Identities=28%  Similarity=0.416  Sum_probs=69.0

Q ss_pred             HHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc------------cccCCceeeccCCCC-CCccchhhhhh
Q psy7782          10 IKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS------------PALGYHYYCRGAGSN-SDKKDDKDKKK   76 (225)
Q Consensus        10 l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~------------~~~~~~~~~~~~~~~-~~~~~~f~~a~   76 (225)
                      .++.+....-.|+..+++|+.--+|+|||||||||||++|+            -+-|..+++.|+|++ +++|++|..|.
T Consensus       234 FRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeSE~NvR~LFaDAE  313 (744)
T KOG0741|consen  234 FRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGESEENVRKLFADAE  313 (744)
T ss_pred             HHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcccHHHHHHHHHhHH
Confidence            34444555678999999999999999999999999999996            345688889999998 89999999985


Q ss_pred             cC--------CCCCC-----ccccccccccCC
Q psy7782          77 KY--------EPPIP-----TRVGKKKRKAKG   95 (225)
Q Consensus        77 ~~--------~p~ii-----d~igk~r~~~~g   95 (225)
                      +.        .=+||     |+|+|+|+...|
T Consensus       314 eE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g  345 (744)
T KOG0741|consen  314 EEQRRLGANSGLHIIIFDEIDAICKQRGSMAG  345 (744)
T ss_pred             HHHHhhCccCCceEEEehhhHHHHHhcCCCCC
Confidence            52        23344     899999985444

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.44  E-value=2.3e-14  Score=132.28  Aligned_cols=79  Identities=22%  Similarity=0.273  Sum_probs=65.5

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCC--------CC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAG--------SN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~--------~~-~~~~   69 (225)
                      |++.+|+++.+....   .+.....+|+.+++|+|||||||||||++|+   .+.+.+|+.+..+        ++ ..++
T Consensus       232 Gl~~lK~~l~~~~~~---~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGese~~l~  308 (489)
T CHL00195        232 GLDNLKDWLKKRSTS---FSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMR  308 (489)
T ss_pred             CHHHHHHHHHHHHHH---hhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChHHHHHH
Confidence            889999999886654   3456678899999999999999999999997   5566888876544        33 5568


Q ss_pred             chhhhhhcCCCCCC
Q psy7782          70 DDKDKKKKYEPPIP   83 (225)
Q Consensus        70 ~~f~~a~~~~p~ii   83 (225)
                      ++|..|+.++|||+
T Consensus       309 ~~f~~A~~~~P~IL  322 (489)
T CHL00195        309 QMIRIAEALSPCIL  322 (489)
T ss_pred             HHHHHHHhcCCcEE
Confidence            99999999999997

>CHL00176 ftsH cell division protein; Validated

Probab=99.44  E-value=4.9e-14  Score=133.83  Aligned_cols=90  Identities=32%  Similarity=0.544  Sum_probs=77.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .|++++++++.+.+.+ +++++.|..+|...++|+|||||||||||++|++   .++.+|+.++.++        + +.+
T Consensus       186 ~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~~~~~v  264 (638)
T CHL00176        186 AGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARV  264 (638)
T ss_pred             cChHHHHHHHHHHHHH-HhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhhhHHHH
Confidence            4899999999999888 9999999999999999999999999999999984   4568888776543        3 556


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|..|+..+|||+     |.++++|.
T Consensus       265 r~lF~~A~~~~P~ILfIDEID~l~~~r~  292 (638)
T CHL00176        265 RDLFKKAKENSPCIVFIDEIDAVGRQRG  292 (638)
T ss_pred             HHHHHHHhcCCCcEEEEecchhhhhccc
Confidence            899999999999996     66776553

>KOG0743|consensus

Probab=99.41  E-value=5.7e-14  Score=125.97  Aligned_cols=61  Identities=25%  Similarity=0.448  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC---CceeeccCCC
Q psy7782           4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG---YHYYCRGAGS   64 (225)
Q Consensus         4 ~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~---~~~~~~~~~~   64 (225)
                      .+.|+.|.+.+..+++..+.|++.|.++.||.|||||||||||++++|+||   ..++.+...+
T Consensus       207 ~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~  270 (457)
T KOG0743|consen  207 PDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTE  270 (457)
T ss_pred             hhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeecc
Confidence            467899999999999999999999999999999999999999999998887   5555555544

>KOG0652|consensus

Probab=99.40  E-value=2e-13  Score=115.37  Aligned_cols=98  Identities=26%  Similarity=0.426  Sum_probs=86.2

Q ss_pred             HHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEec-------CC--------------eEEEEccCCCeEE
Q psy7782         127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIID-------DN--------------HAIVSTSVGSEHY  185 (225)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d-------~~--------------~~iV~~~~g~~~~  185 (225)
                      +..+..+...+++..++.|++-.+.++-.+..|+.|+.|+|++|       ++              -++|++++++.|+
T Consensus        39 ~~sev~ri~he~~~~~ekIkeN~EkIk~Nk~LPYLV~NvvE~ld~~~~~~~e~sg~n~~ld~qrkgkcaViktStRqt~f  118 (424)
T KOG0652|consen   39 MKSEVQRINHELQAMKEKIKENTEKIKVNKQLPYLVSNVVELLDMDPNDDEEDSGANIDLDSQRKGKCAVIKTSTRQTYF  118 (424)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhHHHhhccccCchHHhhHHHHhcCCcccchhccCCcccccccccceeEEEecccceeee
Confidence            34455566667777788888888889999999999999999996       21              2688999999999


Q ss_pred             EeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCC
Q psy7782         186 VSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMV  224 (225)
Q Consensus       186 v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v  224 (225)
                      +++-..||+++|+||+.|++|+++|-|.+.||+++|++|
T Consensus       119 LPvvGLvd~~~LkPgDLVgvnKDsyliletLP~eyDsrV  157 (424)
T KOG0652|consen  119 LPVVGLVDPDKLKPGDLVGVNKDSYLILETLPSEYDSRV  157 (424)
T ss_pred             eeeecccChhhCCCcceeeecCCceeehhcCChhhhhhc
Confidence            999999999999999999999999999999999999987

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.39  E-value=3.6e-12  Score=115.10  Aligned_cols=103  Identities=29%  Similarity=0.510  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCC
Q psy7782         122 KDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGC  201 (225)
Q Consensus       122 ~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~  201 (225)
                      .....++..+..+..+++.++.+++++++++++++.+|+.+|+|.+.+++++++|++++|.+|+|++.++++...|+||+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~v~~~~g~~~~~~~~~~~~~~~l~~g~   94 (389)
T PRK03992         15 EQIRQLELKLRDLEAENEKLERELERLKSELEKLKSPPLIVATVLEVLDDGRVVVKSSGGPQFLVNVSPFIDREKLKPGA   94 (389)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCceEEEEEEEeCCCeEEEEECCCCEEEEeccccCCHhHCCCCC
Confidence            34556666777777777889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEecCCcceeeeccCCCCCCCC
Q psy7782         202 SVLLNHKVHAVVGVLSDDTDPMV  224 (225)
Q Consensus       202 ~V~ln~~~~~Iv~vLp~~~D~~v  224 (225)
                      +|.+|..++++++++|...|+.|
T Consensus        95 ~v~~~~~~~~~~~~l~~~~~~~~  117 (389)
T PRK03992         95 RVALNQQSLAIVEVLPSEKDPRV  117 (389)
T ss_pred             EEEEcCcchhhhhcccccccchh
Confidence            99999999999999999999875

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.38  E-value=1.4e-13  Score=121.84  Aligned_cols=65  Identities=15%  Similarity=0.137  Sum_probs=52.3

Q ss_pred             HcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCccchhhhhhcC-----CCCCC-----
Q psy7782          26 EMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKKDDKDKKKKY-----EPPIP-----   83 (225)
Q Consensus        26 ~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~~~f~~a~~~-----~p~ii-----   83 (225)
                      ..|+.+|+|++||||||||||++|+   .++|++|+.+++++        + +.+|++|..|++.     +||||     
T Consensus       142 ~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEI  221 (413)
T PLN00020        142 LPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDL  221 (413)
T ss_pred             ccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehh
Confidence            3678999999999999999999997   56778888766555        4 6679999999865     69997     


Q ss_pred             ccccccc
Q psy7782          84 TRVGKKK   90 (225)
Q Consensus        84 d~igk~r   90 (225)
                      |++..+|
T Consensus       222 DA~~g~r  228 (413)
T PLN00020        222 DAGAGRF  228 (413)
T ss_pred             hhcCCCC
Confidence            6665555

>KOG0740|consensus

Probab=99.38  E-value=1e-13  Score=124.69  Aligned_cols=81  Identities=30%  Similarity=0.542  Sum_probs=72.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |++++++.+++.+++|+..|+.|..+. .+.+|+||+||||||||+|++   .++++.||++++++        + .-+|
T Consensus       157 gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~Ge~eK~vr  235 (428)
T KOG0740|consen  157 GLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYVGESEKLVR  235 (428)
T ss_pred             chhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhccChHHHHHH
Confidence            789999999999999999999999875 788999999999999999997   66779999887666        3 4469


Q ss_pred             chhhhhhcCCCCCC
Q psy7782          70 DDKDKKKKYEPPIP   83 (225)
Q Consensus        70 ~~f~~a~~~~p~ii   83 (225)
                      .+|..|+..+|+||
T Consensus       236 alf~vAr~~qPsvi  249 (428)
T KOG0740|consen  236 ALFKVARSLQPSVI  249 (428)
T ss_pred             HHHHHHHhcCCeEE
Confidence            99999999999998

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.35  E-value=4.2e-13  Score=129.98  Aligned_cols=90  Identities=37%  Similarity=0.656  Sum_probs=75.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .|++++++.|.+.+.+|+.+|+.|..+|+.+++|+|||||||||||++|++   ..+.+|+.++..+        . ..+
T Consensus       181 ~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~~~~~l  260 (733)
T TIGR01243       181 GGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERL  260 (733)
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccHHHHHH
Confidence            489999999999999999999999999999999999999999999999974   4457777766443        2 446


Q ss_pred             cchhhhhhcCCCCCC-----ccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +.+|+.|...+|||+     |.+..++
T Consensus       261 ~~lf~~a~~~~p~il~iDEid~l~~~r  287 (733)
T TIGR01243       261 REIFKEAEENAPSIIFIDEIDAIAPKR  287 (733)
T ss_pred             HHHHHHHHhcCCcEEEeehhhhhcccc
Confidence            899999999999986     5555443

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.30  E-value=3.5e-12  Score=121.82  Aligned_cols=89  Identities=34%  Similarity=0.531  Sum_probs=76.1

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |++..++.+.+.+.+ +..++.|..++...++|+||+||||||||++|+   ..++.+|+.++.++        + ..++
T Consensus       156 g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~~~~~~~  234 (644)
T PRK10733        156 GCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVR  234 (644)
T ss_pred             CHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcccHHHHH
Confidence            788999999999988 788999999998999999999999999999997   55678888776543        4 5668


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|+..+|||+     |.++.+|.
T Consensus       235 ~~f~~a~~~~P~IifIDEiD~l~~~r~  261 (644)
T PRK10733        235 DMFEQAKKAAPCIIFIDEIDAVGRQRG  261 (644)
T ss_pred             HHHHHHHhcCCcEEEehhHhhhhhccC
Confidence            99999999999996     77777664

>KOG0730|consensus

Probab=99.26  E-value=1.8e-12  Score=120.54  Aligned_cols=89  Identities=37%  Similarity=0.697  Sum_probs=75.5

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCC--------CC-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAG--------SN-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~--------~~-~~~~   69 (225)
                      |+......+.+.+.+|+.++..|..+|+++|+|+|+|||||||||++++   .+.++.++.+++.        ++ +..|
T Consensus       188 g~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~~LR  267 (693)
T KOG0730|consen  188 GLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETESNLR  267 (693)
T ss_pred             hhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHHHHH
Confidence            6788899999999999999999999999999999999999999999997   4555666655544        44 6679


Q ss_pred             chhhhhhcCC-CCCC-----ccccccc
Q psy7782          70 DDKDKKKKYE-PPIP-----TRVGKKK   90 (225)
Q Consensus        70 ~~f~~a~~~~-p~ii-----d~igk~r   90 (225)
                      ..|+.|.+++ |+||     |+++-+|
T Consensus       268 ~~f~~a~k~~~psii~IdEld~l~p~r  294 (693)
T KOG0730|consen  268 KAFAEALKFQVPSIIFIDELDALCPKR  294 (693)
T ss_pred             HHHHHHhccCCCeeEeHHhHhhhCCcc
Confidence            9999999999 9997     6655433

>KOG0651|consensus

Probab=98.96  E-value=2.4e-10  Score=98.67  Aligned_cols=86  Identities=21%  Similarity=0.329  Sum_probs=77.1

Q ss_pred             chhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCC
Q psy7782         139 KPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSD  218 (225)
Q Consensus       139 ~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~  218 (225)
                      +.+.++...-...++.+++....+|.|.+..+++++|||.++|++|+|++...+|..+|++|+||+++-++..|+..||.
T Consensus        34 r~l~k~~~ksend~kslqsvg~~~gevlk~l~~~~~iVK~s~Gpryvvg~~~~~D~~~i~~G~rv~ldittltIm~~lpr  113 (388)
T KOG0651|consen   34 RFLGKKYDKSENDLKSLQSVGQIIGEVLKQLEDEKFIVKASSGPRYVVGCRRSVDKEKIARGTRVVLDITTLTIMRGLPR  113 (388)
T ss_pred             HHHhhhcCcccchHHHhhhcCchhHHHHhhccccceEeecCCCCcEEEEcccccchhhhccCceeeeeeeeeehhcccch
Confidence            34444444555668899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCC
Q psy7782         219 DTDPMVT  225 (225)
Q Consensus       219 ~~D~~v~  225 (225)
                      ++| +|+
T Consensus       114 evd-~vy  119 (388)
T KOG0651|consen  114 EVD-LVY  119 (388)
T ss_pred             HHH-HHH
Confidence            999 653

>CHL00181 cbbX CbbX; Provisional

Probab=98.85  E-value=1.3e-09  Score=94.76  Aligned_cols=51  Identities=25%  Similarity=0.350  Sum_probs=43.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCc---eeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPK---GVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~---giLl~GppGtGKT~la~~~   52 (225)
                      +||+++|++|.+++.+ +..+..+...|+.++.   ++||+||||||||++|++.
T Consensus        26 ~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~l   79 (287)
T CHL00181         26 VGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKM   79 (287)
T ss_pred             CCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHH
Confidence            6999999999999988 6567888888876643   4899999999999999744

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.77  E-value=5.3e-09  Score=87.19  Aligned_cols=56  Identities=20%  Similarity=0.321  Sum_probs=37.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      ||++++++.++-++..        ....-.+..++|||||||||||+||.   .+++.+|...++..
T Consensus        27 iGQ~~l~~~l~i~i~a--------a~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~   85 (233)
T PF05496_consen   27 IGQEHLKGNLKILIRA--------AKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPA   85 (233)
T ss_dssp             -S-HHHHHHHHHHHHH--------HHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC
T ss_pred             cCcHHHHhhhHHHHHH--------HHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchh
Confidence            6888888887776665        11112456799999999999999996   77888888776654

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.76  E-value=3.7e-09  Score=90.42  Aligned_cols=51  Identities=33%  Similarity=0.305  Sum_probs=40.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCC---CceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKP---PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~---~~giLl~GppGtGKT~la~~~   52 (225)
                      +||+++|+.|++.+.++... ......|+.+   ..++|||||||||||++|+.+
T Consensus         9 ~Gl~~vk~~i~~~~~~~~~~-~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~i   62 (261)
T TIGR02881         9 VGLDEVKALIKEIYAWIQIN-EKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARIL   62 (261)
T ss_pred             cChHHHHHHHHHHHHHHHHH-HHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHH
Confidence            69999999999999995444 4445567653   357899999999999999744

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.75  E-value=3.9e-09  Score=91.59  Aligned_cols=49  Identities=27%  Similarity=0.354  Sum_probs=43.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCC---CceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKP---PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~---~~giLl~GppGtGKT~la~   50 (225)
                      +||+++|+.|.+.+.+ +..++.+..+|+.+   ..++||+||||||||++|+
T Consensus        25 ~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~   76 (284)
T TIGR02880        25 IGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVAL   76 (284)
T ss_pred             cCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHH
Confidence            6999999999999999 77888888899774   3489999999999999994

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=98.71  E-value=1.1e-09  Score=82.84  Aligned_cols=49  Identities=33%  Similarity=0.473  Sum_probs=40.3

Q ss_pred             eEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCccchhhhhhcCC-CCCC
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKKDDKDKKKKYE-PPIP   83 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~~~f~~a~~~~-p~ii   83 (225)
                      +|||||||||||++|+   ...+.+++.++.++        + ..+++.|..|+..+ |||+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl   62 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVL   62 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceee
Confidence            6999999999999997   55678888877666        1 34478999999888 9987

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>KOG0729|consensus

Probab=98.64  E-value=2.2e-08  Score=85.28  Aligned_cols=70  Identities=21%  Similarity=0.276  Sum_probs=65.3

Q ss_pred             cCCCceeeEEEEEec----CCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         156 RGTPMSVGTLEEIID----DNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       156 ~~~p~~vg~v~e~~d----~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      ..+|++||.+.++++    |-.++|...+-.+|+|+....+++.+++.|+||+++++.|.|.-.||+.+||+|+
T Consensus        91 ~eqplqvarctkii~~~~~d~~yvin~kqiakfvv~lg~~vsptdieegmrvgvdrnkyqi~lplppkidpsvt  164 (435)
T KOG0729|consen   91 EEQPLQVARCTKIISGNSEDPKYVINVKQIAKFVVGLGDRVSPTDIEEGMRVGVDRNKYQIQLPLPPKIDPSVT  164 (435)
T ss_pred             ccCCceeheeeeecCCCCCCcceeeeHHHHHHHHhccccccCchhhhhhheecccccceeEeccCCCCCCCcee
Confidence            478999999999996    4578898889999999999999999999999999999999999999999999984

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=2.5e-08  Score=94.23  Aligned_cols=100  Identities=23%  Similarity=0.258  Sum_probs=73.3

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCce-eEEEcCCCCCCCcccc---cccCCceeeccCCC--------C----
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKG-VILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N----   65 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~g-iLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~----   65 (225)
                      ||+++|+.|.|++......        -..... ++|.||||+|||++++   ...|..|+-++.|.        |    
T Consensus       327 GLekVKeRIlEyLAV~~l~--------~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRT  398 (782)
T COG0466         327 GLEKVKERILEYLAVQKLT--------KKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRT  398 (782)
T ss_pred             CchhHHHHHHHHHHHHHHh--------ccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccccc
Confidence            8999999999999762111        111123 4699999999999997   55679999998887        1    


Q ss_pred             ------CCccchhhhhhcCCCCCC-ccccccccccCCCCccccCCccCCch
Q psy7782          66 ------SDKKDDKDKKKKYEPPIP-TRVGKKKRKAKGPDAAIKLPQVTPHT  109 (225)
Q Consensus        66 ------~~~~~~f~~a~~~~p~ii-d~igk~r~~~~g~~~~~~l~~v~p~~  109 (225)
                            .++-.-..+|....|-++ |.|-|.....+|+.+++.+...-|..
T Consensus       399 YIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQ  449 (782)
T COG0466         399 YIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQ  449 (782)
T ss_pred             ccccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhh
Confidence                  112245668888999986 88888887788888888876555543

>KOG0742|consensus

Probab=98.57  E-value=1e-08  Score=91.60  Aligned_cols=55  Identities=29%  Similarity=0.427  Sum_probs=47.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC----C----CCccchhhhhhcCCCCCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS----N----SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~----~----~~~~~~f~~a~~~~p~ii   83 (225)
                      ..+.+.||||||||||||++|+   .-+|.++..|.+|+    |    +.++.+|+-|++..--++
T Consensus       381 ~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLl  446 (630)
T KOG0742|consen  381 QAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLL  446 (630)
T ss_pred             cchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceE
Confidence            3577999999999999999997   66889999999999    3    566899999998877765

>KOG0744|consensus

Probab=98.42  E-value=2.5e-08  Score=86.83  Aligned_cols=73  Identities=18%  Similarity=0.128  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHcccCChHHHHHcC-CCCCceeEEEcCCCCCCCcccccccC--------------------CceeeccCC
Q psy7782           5 VQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGPPGTGKTLPFSPALG--------------------YHYYCRGAG   63 (225)
Q Consensus         5 ~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~~~~~--------------------~~~~~~~~~   63 (225)
                      ++|+.+..+....+...+....-. +.+.|=+|||||||||||+||++.+.                    ..+|+.+.+
T Consensus       149 ~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFs  228 (423)
T KOG0744|consen  149 NLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFS  228 (423)
T ss_pred             cHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHh
Confidence            356677777665444433322211 45678899999999999999963332                    334455666


Q ss_pred             CC-CCccchhhhhhc
Q psy7782          64 SN-SDKKDDKDKKKK   77 (225)
Q Consensus        64 ~~-~~~~~~f~~a~~   77 (225)
                      ++ +.+..+|++..+
T Consensus       229 ESgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  229 ESGKLVAKMFQKIQE  243 (423)
T ss_pred             hhhhHHHHHHHHHHH
Confidence            64 667788886544

>TIGR00763 lon ATP-dependent protease La

Probab=98.39  E-value=2.4e-07  Score=90.64  Aligned_cols=80  Identities=23%  Similarity=0.221  Sum_probs=54.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC-------------
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS-------------   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~-------------   64 (225)
                      +|++++++.|.+++..+...       +-.....+|||||||||||++|++   ..+.+|+.++.+.             
T Consensus       323 ~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~  395 (775)
T TIGR00763       323 YGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRT  395 (775)
T ss_pred             CChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCc
Confidence            48999999999988763211       112234799999999999999974   3456777665432             


Q ss_pred             ----C-CCccchhhhhhcCCCCCC-cccc
Q psy7782          65 ----N-SDKKDDKDKKKKYEPPIP-TRVG   87 (225)
Q Consensus        65 ----~-~~~~~~f~~a~~~~p~ii-d~ig   87 (225)
                          . ..+.+.|..|....|+|+ |.|.
T Consensus       396 ~~g~~~g~i~~~l~~~~~~~~villDEid  424 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKAKTKNPLFLLDEID  424 (775)
T ss_pred             eeCCCCchHHHHHHHhCcCCCEEEEechh
Confidence                1 223467778887888765 5553

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.35  E-value=1.2e-07  Score=84.55  Aligned_cols=59  Identities=24%  Similarity=0.325  Sum_probs=46.5

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-C-CCccchhhhhhcCCC----CCC--cccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-N-SDKKDDKDKKKKYEP----PIP--TRVGKK   89 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-~-~~~~~~f~~a~~~~p----~ii--d~igk~   89 (225)
                      ...+++||||||||||++|+   ...+.+|..+++.. | +.+|++|+.|+++.-    .|+  |.|.+=
T Consensus        47 ~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRf  116 (436)
T COG2256          47 HLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRF  116 (436)
T ss_pred             CCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHHHHHHHhcCCceEEEEehhhhc
Confidence            45689999999999999997   55668999988877 4 778999999976654    343  777543

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.35  E-value=3.6e-07  Score=78.42  Aligned_cols=56  Identities=20%  Similarity=0.311  Sum_probs=43.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      ||.+++|+.|.-++..        +...-....++|||||||.|||+||.   .++|.++-..++..
T Consensus        29 iGQ~~vk~~L~ifI~A--------Ak~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~   87 (332)
T COG2255          29 IGQEKVKEQLQIFIKA--------AKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPA   87 (332)
T ss_pred             cChHHHHHHHHHHHHH--------HHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEeccccc
Confidence            6888899988888877        33344677899999999999999995   77777766554443

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=98.26  E-value=1.6e-07  Score=85.14  Aligned_cols=82  Identities=18%  Similarity=0.140  Sum_probs=54.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC-CCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-------C----
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI-KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-------N----   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~-~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-------~----   65 (225)
                      +|++++++.+...+...++.......... ..++++||+||||||||++|+   ...+.+|+.+....       |    
T Consensus        18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d~e   97 (443)
T PRK05201         18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVE   97 (443)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCCHH
Confidence            68899999998887553322111111110 135899999999999999997   45668888665432       2    


Q ss_pred             CCccchhhhhhcCCCCC
Q psy7782          66 SDKKDDKDKKKKYEPPI   82 (225)
Q Consensus        66 ~~~~~~f~~a~~~~p~i   82 (225)
                      +-++++|+.|..++|+=
T Consensus        98 ~~ir~L~~~A~~~~~~~  114 (443)
T PRK05201         98 SIIRDLVEIAVKMVREE  114 (443)
T ss_pred             HHHHHHHHHHHHHhHHH
Confidence            33489999997777663

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.20  E-value=7.9e-07  Score=80.59  Aligned_cols=77  Identities=21%  Similarity=0.235  Sum_probs=51.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcC-CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-------C----
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-------N----   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-------~----   65 (225)
                      +|.+++++.+...+...++.......++ -.+|+++||+||||||||++|+   ...+.+|+.+....       |    
T Consensus        15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~dvE   94 (441)
T TIGR00390        15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVE   94 (441)
T ss_pred             cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCCHH
Confidence            6889999998877765432222111111 2256999999999999999997   55678888766442       2    


Q ss_pred             CCccchhhhhhc
Q psy7782          66 SDKKDDKDKKKK   77 (225)
Q Consensus        66 ~~~~~~f~~a~~   77 (225)
                      +.++++|..|..
T Consensus        95 ~i~r~l~e~A~~  106 (441)
T TIGR00390        95 SMVRDLTDAAVK  106 (441)
T ss_pred             HHHHHHHHHHHH
Confidence            223678887743

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>KOG2004|consensus

Probab=98.19  E-value=8.5e-07  Score=84.08  Aligned_cols=94  Identities=26%  Similarity=0.298  Sum_probs=61.9

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHc-CCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCCCCc---------
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEM-GIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSNSDK---------   68 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~-g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~~~~---------   68 (225)
                      ||+++|+.|.|++.-        ..+ |-...+=++|+||||.|||++++   ...|..||.+++|.-+.+         
T Consensus       415 gm~dVKeRILEfiAV--------~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRT  486 (906)
T KOG2004|consen  415 GMEDVKERILEFIAV--------GKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRT  486 (906)
T ss_pred             chHHHHHHHHHHHHH--------HhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccccee
Confidence            899999999999866        111 22233456799999999999997   567899999988872111         


Q ss_pred             ---------cchhhhhhcCCCCCC-ccccccccccCCCCccccCC
Q psy7782          69 ---------KDDKDKKKKYEPPIP-TRVGKKKRKAKGPDAAIKLP  103 (225)
Q Consensus        69 ---------~~~f~~a~~~~p~ii-d~igk~r~~~~g~~~~~~l~  103 (225)
                               -+-.+...-..|-|+ |.|.|=.+..+|+.+++-+.
T Consensus       487 YVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLE  531 (906)
T KOG2004|consen  487 YVGAMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLE  531 (906)
T ss_pred             eeccCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHH
Confidence                     133344455677774 55544334456665555543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.13  E-value=1.9e-06  Score=74.93  Aligned_cols=53  Identities=23%  Similarity=0.375  Sum_probs=37.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +|.+++++.|..++....        ..-..+.+++||||||||||++|+   ...+.++...+
T Consensus         7 iG~~~~~~~l~~~l~~~~--------~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~   62 (305)
T TIGR00635         7 IGQEKVKEQLQLFIEAAK--------MRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITS   62 (305)
T ss_pred             cCHHHHHHHHHHHHHHHH--------hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEec
Confidence            689999999888885411        112345789999999999999996   33445554443

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.00  E-value=4.3e-06  Score=73.85  Aligned_cols=53  Identities=25%  Similarity=0.344  Sum_probs=37.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +|.+++++.+...+....        ..-.++.++|||||||||||++|+   ...+..+...+
T Consensus        28 vG~~~~~~~l~~~l~~~~--------~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~   83 (328)
T PRK00080         28 IGQEKVKENLKIFIEAAK--------KRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITS   83 (328)
T ss_pred             cCcHHHHHHHHHHHHHHH--------hcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEe
Confidence            577888888887775411        112456799999999999999997   44455555443

>PRK04195 replication factor C large subunit; Provisional

Probab=97.99  E-value=5e-06  Score=77.24  Aligned_cols=55  Identities=33%  Similarity=0.524  Sum_probs=42.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.+++++.|.+++....        .| .+++++|||||||||||++|+   ...+.+++.++.++
T Consensus        17 vg~~~~~~~l~~~l~~~~--------~g-~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd   74 (482)
T PRK04195         17 VGNEKAKEQLREWIESWL--------KG-KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASD   74 (482)
T ss_pred             cCCHHHHHHHHHHHHHHh--------cC-CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccc
Confidence            577888888888885512        12 347899999999999999997   44668888888876

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.97  E-value=3.3e-06  Score=76.92  Aligned_cols=64  Identities=17%  Similarity=0.211  Sum_probs=41.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHH--cCC-CCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEE--MGI-KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~--~g~-~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|++++++.|...+..+++.-.....  -.. .+..++||+||||||||++|+   ...+.+|+.++.+.
T Consensus        74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~  143 (412)
T PRK05342         74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATT  143 (412)
T ss_pred             eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhh
Confidence            68899999887776543222110000  011 245799999999999999997   44568888666543

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.96  E-value=2.3e-06  Score=83.32  Aligned_cols=53  Identities=25%  Similarity=0.229  Sum_probs=39.6

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---C--------CCccchhhhhhcCCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---N--------SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---~--------~~~~~~f~~a~~~~p~ii   83 (225)
                      ...++|||||||||||++|+..             .+..+++++.+.   |        ..++++|+.|+...|+|+
T Consensus       202 ~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~IL  278 (731)
T TIGR02639       202 KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAIL  278 (731)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHHHHhccCCeEE
Confidence            4568999999999999998622             256677766443   1        345789999988888886

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.90  E-value=9.9e-06  Score=79.33  Aligned_cols=57  Identities=26%  Similarity=0.260  Sum_probs=41.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      .|++++|+.|.+++......       +......++|+||||||||++++   ...+.+|+.++.+.
T Consensus       325 ~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~  384 (784)
T PRK10787        325 YGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGG  384 (784)
T ss_pred             cCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCC
Confidence            48999999999988752211       11233468999999999999997   34567887666554

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.86  E-value=7.4e-06  Score=73.02  Aligned_cols=43  Identities=19%  Similarity=0.314  Sum_probs=32.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC-CCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK-PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~-~~~giLl~GppGtGKT~la~~   51 (225)
                      +|++++++.+.+++....        .|.. ..+.++|+||||||||++|++
T Consensus        54 ~G~~~~i~~lv~~l~~~a--------~g~~~~r~il~L~GPPGsGKStla~~   97 (361)
T smart00763       54 FGMEEAIERFVNYFKSAA--------QGLEERKQILYLLGPVGGGKSSLVEC   97 (361)
T ss_pred             cCcHHHHHHHHHHHHHHH--------hcCCCCCcEEEEECCCCCCHHHHHHH
Confidence            588999888887776522        2323 457789999999999999963

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>KOG0989|consensus

Probab=97.85  E-value=8.3e-06  Score=70.74  Aligned_cols=32  Identities=31%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             ceeEEEcCCCCCCCcccc----cccC-----CceeeccCCC
Q psy7782          33 KGVILYGPPGTGKTLPFS----PALG-----YHYYCRGAGS   64 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~----~~~~-----~~~~~~~~~~   64 (225)
                      -.+|||||||||||+.|.    +..+     ..+.+.++++
T Consensus        58 p~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSd   98 (346)
T KOG0989|consen   58 PHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASD   98 (346)
T ss_pred             ceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccc
Confidence            379999999999999774    2222     4445666666

>KOG2028|consensus

Probab=97.85  E-value=6.4e-06  Score=73.18  Aligned_cols=48  Identities=29%  Similarity=0.420  Sum_probs=36.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccC------CceeeccCCCC--CCccchhhhhhcC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG------YHYYCRGAGSN--SDKKDDKDKKKKY   78 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~------~~~~~~~~~~~--~~~~~~f~~a~~~   78 (225)
                      ...+++|+||||||||++|+.++.      ..|+++++...  ..+|++|+.|+..
T Consensus       161 ~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~  216 (554)
T KOG2028|consen  161 RIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNE  216 (554)
T ss_pred             CCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHH
Confidence            456899999999999999973222      44777777663  6679999988763

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.84  E-value=7e-06  Score=74.84  Aligned_cols=45  Identities=29%  Similarity=0.417  Sum_probs=34.7

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeeccCCCC--CCccchhhhhh
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGSN--SDKKDDKDKKK   76 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~~--~~~~~~f~~a~   76 (225)
                      ..++|||||||||||++|+.   ..+.+|+.++....  ..++++++.+.
T Consensus        36 ~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~~   85 (413)
T PRK13342         36 LSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEAR   85 (413)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHH
Confidence            45899999999999999974   45678888877653  55677777764

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.83  E-value=4.8e-06  Score=77.48  Aligned_cols=68  Identities=40%  Similarity=0.736  Sum_probs=52.8

Q ss_pred             cccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc--CCcee--------eccCCCC-CCccchhhhhhcCCCCCC
Q psy7782          16 LPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL--GYHYY--------CRGAGSN-SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        16 ~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~--~~~~~--------~~~~~~~-~~~~~~f~~a~~~~p~ii   83 (225)
                      .|+.+++.++.+++.+++++++|||||||||++++..+  +..++        ..+.++. ...+.+|..|+.++|+|+
T Consensus         2 ~~~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii   80 (494)
T COG0464           2 LPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANEGAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSII   80 (494)
T ss_pred             CCccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhccCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeE
Confidence            46889999999999999999999999999999996322  22332        2222223 445799999999999887

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.81  E-value=7e-06  Score=80.92  Aligned_cols=57  Identities=23%  Similarity=0.162  Sum_probs=41.7

Q ss_pred             CCCceeEEEcCCCCCCCccccc-------------ccCCceeeccCCC---C--------CCccchhhhhhcCCCCCC--
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSP-------------ALGYHYYCRGAGS---N--------SDKKDDKDKKKKYEPPIP--   83 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~-------------~~~~~~~~~~~~~---~--------~~~~~~f~~a~~~~p~ii--   83 (225)
                      ..+.+++|+||||||||++|..             ..+.+++.++.+.   |        ..++++|+.++...|+|+  
T Consensus       198 ~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfi  277 (821)
T CHL00095        198 RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVI  277 (821)
T ss_pred             cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEE
Confidence            4567999999999999999851             1246778777554   2        245689998888888875  


Q ss_pred             ccc
Q psy7782          84 TRV   86 (225)
Q Consensus        84 d~i   86 (225)
                      |.+
T Consensus       278 DEi  280 (821)
T CHL00095        278 DEV  280 (821)
T ss_pred             ecH
Confidence            544

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=1.2e-05  Score=74.58  Aligned_cols=39  Identities=26%  Similarity=0.272  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.+++++.|...+..           + ..+.++|||||||||||++|+.
T Consensus        17 vGq~~i~~~L~~~i~~-----------~-~l~~~~Lf~GPpGtGKTTlA~~   55 (472)
T PRK14962         17 VGQDHVKKLIINALKK-----------N-SISHAYIFAGPRGTGKTTVARI   55 (472)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHH
Confidence            5777777766665544           1 2456799999999999999973

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.77  E-value=1.1e-05  Score=73.25  Aligned_cols=47  Identities=15%  Similarity=0.383  Sum_probs=37.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|...+..+...+.   .++...+.++|||||||+|||++|.
T Consensus         8 iGq~~~~~~L~~~i~~~~~~~~---~~~~~l~ha~Lf~Gp~G~GKt~lA~   54 (394)
T PRK07940          8 VGQEAVVAELRAAARAARADVA---AAGSGMTHAWLFTGPPGSGRSVAAR   54 (394)
T ss_pred             cChHHHHHHHHHHHHhcccccc---ccCCCCCeEEEEECCCCCcHHHHHH
Confidence            6899999999999988554322   2344567899999999999999985

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.76  E-value=5.4e-06  Score=63.71  Aligned_cols=40  Identities=35%  Similarity=0.445  Sum_probs=30.4

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeeccCCCCCCccchhh
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCRGAGSNSDKKDDKD   73 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~~~~~~~f~   73 (225)
                      ++||+||||||||++|+   +..+.+++.++........+++.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEecccccccccee
Confidence            58999999999999997   55578888888777555555554

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PLN03025 replication factor C subunit; Provisional

Probab=97.71  E-value=1.8e-05  Score=69.72  Aligned_cols=51  Identities=24%  Similarity=0.276  Sum_probs=32.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC--------CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG--------YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~--------~~~~~~~~~~   64 (225)
                      +|.+++.+.|+.++..           +  ...++|||||||||||++|.+.+.        ..++.++.++
T Consensus        16 ~g~~~~~~~L~~~~~~-----------~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd   74 (319)
T PLN03025         16 VGNEDAVSRLQVIARD-----------G--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASD   74 (319)
T ss_pred             cCcHHHHHHHHHHHhc-----------C--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccc
Confidence            3556666666655432           1  123699999999999999863322        2356666665

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.71  E-value=1.6e-05  Score=59.82  Aligned_cols=50  Identities=38%  Similarity=0.694  Sum_probs=32.4

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      |.+.+.+.+...+..             ...+.++++||||||||++++..+      +.+++.+...+
T Consensus         2 ~~~~~~~~i~~~~~~-------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~   57 (151)
T cd00009           2 GQEEAIEALREALEL-------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASD   57 (151)
T ss_pred             chHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhh
Confidence            455555555555443             145689999999999999997433      44555544443

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=2.9e-05  Score=71.01  Aligned_cols=23  Identities=48%  Similarity=0.764  Sum_probs=19.7

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..++||+|||||||||+|+.+.+
T Consensus       198 gHnLl~~GpPGtGKTmla~Rl~~  220 (490)
T COG0606         198 GHNLLLVGPPGTGKTMLASRLPG  220 (490)
T ss_pred             CCcEEEecCCCCchHHhhhhhcc
Confidence            46999999999999999975555

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.65  E-value=2.4e-05  Score=70.21  Aligned_cols=38  Identities=24%  Similarity=0.350  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.++..+..           | ..+..+|||||||||||++|+
T Consensus        19 iGq~~~~~~l~~~~~~-----------~-~~~h~~L~~Gp~G~GKTtla~   56 (363)
T PRK14961         19 IGQKHIVTAISNGLSL-----------G-RIHHAWLLSGTRGVGKTTIAR   56 (363)
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCeEEEEecCCCCCHHHHHH
Confidence            5777777777666544           2 345678999999999999996

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=97.62  E-value=3.1e-05  Score=70.49  Aligned_cols=62  Identities=19%  Similarity=0.308  Sum_probs=38.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHH----HHHcCC-CCCceeEEEcCCCCCCCcccc---cccCCceeeccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEY----YEEMGI-KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGA   62 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~----~~~~g~-~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~   62 (225)
                      +|.+++++.+...+....+.-..    ...-++ ....++||+||||||||++|+   ...+.+|..+..
T Consensus        80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da  149 (413)
T TIGR00382        80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADA  149 (413)
T ss_pred             cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEech
Confidence            68899999887776331111100    000011 124689999999999999997   345677765543

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=97.60  E-value=2.1e-05  Score=70.13  Aligned_cols=56  Identities=21%  Similarity=0.375  Sum_probs=35.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccC--CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALG--YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~--~~~~~~~~~~   64 (225)
                      +|+.++.++.--.+.+ .       .-|--..+++||.||||||||.+|-   .+.|  .||..+++++
T Consensus        27 VGQ~~AReAagiiv~m-I-------k~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSE   87 (398)
T PF06068_consen   27 VGQEKAREAAGIIVDM-I-------KEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSE   87 (398)
T ss_dssp             ES-HHHHHHHHHHHHH-H-------HTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGG
T ss_pred             cChHHHHHHHHHHHHH-H-------hcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccce
Confidence            3566666665555444 2       1233457999999999999999995   4444  9999998888

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>KOG0736|consensus

Probab=97.58  E-value=1.8e-05  Score=75.80  Aligned_cols=62  Identities=23%  Similarity=0.394  Sum_probs=48.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCccchhhhhhcCCCCCC-----ccccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDKKDDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~~~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +...-.+||||+||||||++++   .+.|.+++.+...+      +   .+....|.+|+...||||     |.+|..+
T Consensus       428 ~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~  506 (953)
T KOG0736|consen  428 LTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQ  506 (953)
T ss_pred             cccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecC
Confidence            3444578999999999999986   67888888776544      1   334688999999999998     7777444

>KOG0735|consensus

Probab=97.57  E-value=2.5e-05  Score=74.35  Aligned_cols=55  Identities=20%  Similarity=0.238  Sum_probs=38.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC---------CceeeccCCCCCC-------ccchhhhhhcCCCCCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG---------YHYYCRGAGSNSD-------KKDDKDKKKKYEPPIP   83 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~---------~~~~~~~~~~~~~-------~~~~f~~a~~~~p~ii   83 (225)
                      +..+..|||+||+|||||.|+++.++         ..+++-.-..|++       .+++|..|-.++|+||
T Consensus       428 v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiI  498 (952)
T KOG0735|consen  428 VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSII  498 (952)
T ss_pred             ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEE
Confidence            34568999999999999999975444         2222222222322       2588999999999998

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.57  E-value=3.6e-05  Score=67.53  Aligned_cols=38  Identities=24%  Similarity=0.491  Sum_probs=26.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.+++++.|..++..           +  ...++|||||||||||++|++
T Consensus        18 ~g~~~~~~~L~~~~~~-----------~--~~~~lll~Gp~GtGKT~la~~   55 (337)
T PRK12402         18 LGQDEVVERLSRAVDS-----------P--NLPHLLVQGPPGSGKTAAVRA   55 (337)
T ss_pred             cCCHHHHHHHHHHHhC-----------C--CCceEEEECCCCCCHHHHHHH
Confidence            3556666666655542           1  123799999999999999963

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.56  E-value=1.7e-05  Score=59.00  Aligned_cols=19  Identities=37%  Similarity=0.702  Sum_probs=17.1

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ...++|+||||||||++++
T Consensus         2 ~~~~~l~G~~G~GKTtl~~   20 (148)
T smart00382        2 GEVILIVGPPGSGKTTLAR   20 (148)
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            4679999999999999986

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.55  E-value=4.5e-05  Score=67.60  Aligned_cols=37  Identities=32%  Similarity=0.593  Sum_probs=30.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc---cccC--CceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS---PALG--YHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~---~~~~--~~~~~~~~~~   64 (225)
                      |-...+|+|+.||||||||.+|-   .+.|  .||..+++++
T Consensus        61 gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsE  102 (450)
T COG1224          61 GKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSE  102 (450)
T ss_pred             CcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccce
Confidence            44567999999999999999994   4444  8999988888

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=97.54  E-value=4.8e-05  Score=62.91  Aligned_cols=38  Identities=24%  Similarity=0.359  Sum_probs=26.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +|++.+|.+|.-....               ..++||+||||||||++|+++.
T Consensus         6 ~GQe~aKrAL~iAAaG---------------~h~lLl~GppGtGKTmlA~~l~   43 (206)
T PF01078_consen    6 VGQEEAKRALEIAAAG---------------GHHLLLIGPPGTGKTMLARRLP   43 (206)
T ss_dssp             SSTHHHHHHHHHHHHC---------------C--EEEES-CCCTHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHcC---------------CCCeEEECCCCCCHHHHHHHHH
Confidence            4777777776554443               2599999999999999997433

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.54  E-value=4.3e-05  Score=70.61  Aligned_cols=38  Identities=29%  Similarity=0.524  Sum_probs=28.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+.+.|...+..           + ..+..+|||||||||||++|+
T Consensus        21 VGQe~iv~~L~~~i~~-----------~-ri~ha~Lf~GP~GtGKTTlAr   58 (484)
T PRK14956         21 IHQDLAIGALQNALKS-----------G-KIGHAYIFFGPRGVGKTTIAR   58 (484)
T ss_pred             hChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            4677777776666654           1 234579999999999999996

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.52  E-value=6.6e-05  Score=63.56  Aligned_cols=67  Identities=24%  Similarity=0.333  Sum_probs=48.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCCCCCccchhhh
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGSNSDKKDDKDK   74 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~~~~~~~~f~~   74 (225)
                      +|++.+++.|.+....++       . | .+...+||||+.|||||++++      +.-|..++.+...+-..+-++++.
T Consensus        30 ~Gie~Qk~~l~~Nt~~Fl-------~-G-~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~  100 (249)
T PF05673_consen   30 IGIERQKEALIENTEQFL-------Q-G-LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDL  100 (249)
T ss_pred             cCHHHHHHHHHHHHHHHH-------c-C-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHH
Confidence            689999999988876643       2 3 467899999999999999997      344577777776664444455554


Q ss_pred             hh
Q psy7782          75 KK   76 (225)
Q Consensus        75 a~   76 (225)
                      .+
T Consensus       101 l~  102 (249)
T PF05673_consen  101 LR  102 (249)
T ss_pred             Hh
Confidence            33

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.52  E-value=6.4e-05  Score=73.31  Aligned_cols=53  Identities=28%  Similarity=0.414  Sum_probs=35.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCC---Cc-eeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKP---PK-GVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~---~~-giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +|++++++.|.+.+..        .+.|+..   |. .+||+||||||||.+|+   ...+.+++.+.
T Consensus       457 ~GQ~~ai~~l~~~i~~--------~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d  516 (731)
T TIGR02639       457 FGQDEAIDSLVSSIKR--------SRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFD  516 (731)
T ss_pred             eCcHHHHHHHHHHHHH--------HhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEe
Confidence            4777777777777654        2334322   33 47899999999999997   33345555444

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.51  E-value=4.6e-05  Score=69.18  Aligned_cols=38  Identities=26%  Similarity=0.413  Sum_probs=28.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|...+..           | ..+.++|||||||||||++|.
T Consensus        19 iGq~~~~~~L~~~~~~-----------~-~~~ha~lf~Gp~G~GKtt~A~   56 (397)
T PRK14955         19 TAQEHITRTIQNSLRM-----------G-RVGHGYIFSGLRGVGKTTAAR   56 (397)
T ss_pred             cChHHHHHHHHHHHHh-----------C-CcceeEEEECCCCCCHHHHHH
Confidence            4777777766665543           2 355789999999999999885

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=5e-05  Score=71.00  Aligned_cols=38  Identities=18%  Similarity=0.322  Sum_probs=30.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|..++..           + ..+..+|||||||||||++|+
T Consensus        17 vGq~~v~~~L~~~i~~-----------~-~l~ha~Lf~GppGtGKTTlA~   54 (504)
T PRK14963         17 VGQEHVKEVLLAALRQ-----------G-RLGHAYLFSGPRGVGKTTTAR   54 (504)
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5888888888877765           1 244567999999999999986

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.47  E-value=7.9e-05  Score=72.75  Aligned_cols=54  Identities=28%  Similarity=0.468  Sum_probs=37.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC----CCCceeEEEcCCCCCCCcccc---cccCCceeeccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI----KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGA   62 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~----~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~   62 (225)
                      +|.+++++.|.+.+...        ..|+    .|...+||+||||||||.+|+   ...+.+|+.++.
T Consensus       461 iGQ~~ai~~l~~~i~~~--------~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~  521 (758)
T PRK11034        461 FGQDKAIEALTEAIKMS--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDM  521 (758)
T ss_pred             eCcHHHHHHHHHHHHHH--------hccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeec
Confidence            58888888888888651        1222    234568999999999999996   334566664443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.47  E-value=8.2e-05  Score=65.01  Aligned_cols=53  Identities=21%  Similarity=0.254  Sum_probs=37.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGSN   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~~   65 (225)
                      +|-+++++.+..++..           | ..+..+|||||||+|||++|++.   .+.+++.++.+++
T Consensus        24 ~~~~~~~~~l~~~~~~-----------~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~   79 (316)
T PHA02544         24 ILPAADKETFKSIVKK-----------G-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDC   79 (316)
T ss_pred             cCcHHHHHHHHHHHhc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcc
Confidence            3566677766666542           2 24556777999999999999743   3567788877763

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.46  E-value=5.9e-05  Score=70.62  Aligned_cols=38  Identities=13%  Similarity=0.215  Sum_probs=30.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+..+|||||||||||++|+
T Consensus        19 vGq~~v~~~L~~~~~~-----------~-~l~ha~Lf~Gp~G~GKTt~A~   56 (509)
T PRK14958         19 IGQAPVVRALSNALDQ-----------Q-YLHHAYLFTGTRGVGKTTISR   56 (509)
T ss_pred             cCCHHHHHHHHHHHHh-----------C-CCCeeEEEECCCCCCHHHHHH
Confidence            5888888888877754           1 345688999999999999885

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.45  E-value=4.1e-05  Score=75.79  Aligned_cols=53  Identities=23%  Similarity=0.237  Sum_probs=36.3

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---CC--------Cccchhhhh-hcCCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---NS--------DKKDDKDKK-KKYEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---~~--------~~~~~f~~a-~~~~p~ii   83 (225)
                      ....++|+||||||||++|+..             .+.+++.+..+.   |.        .++.+|+.+ +...|+|+
T Consensus       198 ~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~IL  275 (857)
T PRK10865        198 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVIL  275 (857)
T ss_pred             CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEE
Confidence            4468999999999999998511             267777765554   22        346777764 34567775

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=6.8e-05  Score=71.64  Aligned_cols=38  Identities=18%  Similarity=0.294  Sum_probs=30.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|..++..           | ..+.++||+||||||||++|+
T Consensus        18 IGQe~vv~~L~~aI~~-----------g-rl~HAyLF~GPpGvGKTTlAr   55 (702)
T PRK14960         18 VGQNHVSRALSSALER-----------G-RLHHAYLFTGTRGVGKTTIAR   55 (702)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5788888888777753           2 345789999999999999986

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=7.3e-05  Score=69.51  Aligned_cols=38  Identities=29%  Similarity=0.517  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+.+.|...+..           | ..+.++||+||||||||++|+
T Consensus        16 iGQe~vv~~L~~a~~~-----------~-ri~ha~Lf~Gp~G~GKTT~Ar   53 (491)
T PRK14964         16 VGQDVLVRILRNAFTL-----------N-KIPQSILLVGASGVGKTTCAR   53 (491)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCccHHHHHH
Confidence            5777777777655544           2 346799999999999999885

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.40  E-value=8.4e-05  Score=69.46  Aligned_cols=38  Identities=21%  Similarity=0.288  Sum_probs=27.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+.+.|...+..           + ..+.++||+||||||||++|+
T Consensus        24 iGq~~vv~~L~~ai~~-----------~-ri~~a~Lf~Gp~G~GKTT~Ar   61 (507)
T PRK06645         24 QGQEVLVKVLSYTILN-----------D-RLAGGYLLTGIRGVGKTTSAR   61 (507)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            4666666665554433           2 345799999999999999986

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.40  E-value=9.5e-05  Score=63.37  Aligned_cols=33  Identities=27%  Similarity=0.175  Sum_probs=26.6

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeeccCCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS   64 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~   64 (225)
                      ...+||.||||||||++|++   ..|.+++.++...
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~   56 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDA   56 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCc
Confidence            46899999999999999973   4577888776554

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.40  E-value=7.6e-05  Score=73.37  Aligned_cols=38  Identities=13%  Similarity=0.225  Sum_probs=29.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|+.++..           + ..+..+|||||||||||++|+
T Consensus        19 IGQe~Iv~~LknaI~~-----------~-rl~HAyLFtGPpGtGKTTLAR   56 (944)
T PRK14949         19 VGQSHVLHALTNALTQ-----------Q-RLHHAYLFTGTRGVGKTSLAR   56 (944)
T ss_pred             cCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777777777766554           1 345678999999999999996

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.36  E-value=7.8e-05  Score=72.78  Aligned_cols=53  Identities=21%  Similarity=0.166  Sum_probs=37.1

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---C--------CCccchhhhhhcCCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---N--------SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---~--------~~~~~~f~~a~~~~p~ii   83 (225)
                      ....+||+||||||||++|+..             .+..++.+..+.   |        ...+.+|..+++..|+|+
T Consensus       206 ~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e~rl~~l~~~l~~~~~~IL  282 (758)
T PRK11034        206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSIL  282 (758)
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHHHHHHHHHHHHHhcCCCEE
Confidence            4568899999999999999632             245555544332   1        224678888888888886

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.35  E-value=0.00013  Score=68.83  Aligned_cols=55  Identities=18%  Similarity=0.227  Sum_probs=36.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC----CceeeccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG----YHYYCRGA   62 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~----~~~~~~~~   62 (225)
                      .||+++++.|-+++..-.      ..++ ...+-++|.||||+|||+||+.++.    .++|.+.+
T Consensus        79 yGlee~ieriv~~l~~Aa------~gl~-~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg  137 (644)
T PRK15455         79 YGMEEAIEQIVSYFRHAA------QGLE-EKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA  137 (644)
T ss_pred             cCcHHHHHHHHHHHHHHH------HhcC-CCCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence            489999998888774411      1122 2334667999999999999963322    45555543

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.34  E-value=0.00011  Score=69.21  Aligned_cols=38  Identities=16%  Similarity=0.281  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|...+..            -..+.++|||||||||||++|+
T Consensus        19 vGq~~v~~~L~~~i~~------------~~~~ha~Lf~Gp~G~GKTt~A~   56 (527)
T PRK14969         19 VGQEHVVRALTNALEQ------------QRLHHAYLFTGTRGVGKTTLAR   56 (527)
T ss_pred             cCcHHHHHHHHHHHHc------------CCCCEEEEEECCCCCCHHHHHH
Confidence            5777777777766654            1345678999999999999885

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.33  E-value=0.00011  Score=69.75  Aligned_cols=38  Identities=21%  Similarity=0.275  Sum_probs=28.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|...+..           + ..+.++|||||||||||++|+
T Consensus        19 IGQe~iv~~L~~aI~~-----------~-rl~hA~Lf~GP~GvGKTTlA~   56 (605)
T PRK05896         19 IGQELIKKILVNAILN-----------N-KLTHAYIFSGPRGIGKTSIAK   56 (605)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            4667777766665533           2 345789999999999999985

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.33  E-value=0.00012  Score=60.73  Aligned_cols=23  Identities=30%  Similarity=0.496  Sum_probs=19.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      .....++|+||||||||++|++.
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~   58 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAA   58 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHH
Confidence            34679999999999999999743

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.33  E-value=0.00011  Score=69.26  Aligned_cols=38  Identities=18%  Similarity=0.222  Sum_probs=28.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+..+|||||||||||++|+
T Consensus        19 iGq~~~v~~L~~~i~~-----------~-rl~ha~Lf~Gp~GvGKTTlAr   56 (546)
T PRK14957         19 AGQQHALNSLVHALET-----------Q-KVHHAYLFTGTRGVGKTTLGR   56 (546)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            4677777766665543           1 345679999999999999986

>KOG0741|consensus

Probab=97.32  E-value=6.4e-05  Score=69.63  Aligned_cols=54  Identities=24%  Similarity=0.257  Sum_probs=42.5

Q ss_pred             CCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC---C-------CCccchhhhhhcCCCCCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS---N-------SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~---~-------~~~~~~f~~a~~~~p~ii   83 (225)
                      .+...+||+||||+|||.||+   ..++.||+-+-..+   |       ..++.+|+.|.+..-+||
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsii  602 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSII  602 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEE
Confidence            566899999999999999997   55779999765554   2       224799999988777665

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.28  E-value=0.00013  Score=64.54  Aligned_cols=38  Identities=26%  Similarity=0.462  Sum_probs=29.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|.+.+..           | ..+..+|||||||+|||++|+
T Consensus        17 ig~~~~~~~l~~~~~~-----------~-~~~~~~Ll~G~~G~GKt~~a~   54 (355)
T TIGR02397        17 IGQEHIVQTLKNAIKN-----------G-RIAHAYLFSGPRGTGKTSIAR   54 (355)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777888877776643           2 345689999999999999985

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.27  E-value=0.00013  Score=69.38  Aligned_cols=38  Identities=18%  Similarity=0.386  Sum_probs=29.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|+.++..           | ..+..+|||||+|||||++|+
T Consensus        16 vGq~~i~~~L~~~i~~-----------~-r~~ha~Lf~Gp~G~GKTt~A~   53 (584)
T PRK14952         16 VGQEHVTEPLSSALDA-----------G-RINHAYLFSGPRGCGKTSSAR   53 (584)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777888877777654           2 345678999999999999885

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=97.27  E-value=0.00013  Score=70.94  Aligned_cols=44  Identities=32%  Similarity=0.454  Sum_probs=30.0

Q ss_pred             CceeEEEcCCCCCCCcccccc---cCCceeeccCCC-C-CCccchhhhh
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS-N-SDKKDDKDKK   75 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~-~-~~~~~~f~~a   75 (225)
                      ..++|||||||||||++|++.   .+.+|+.++... + ..+++.+..+
T Consensus        52 ~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~i~dir~~i~~a  100 (725)
T PRK13341         52 VGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDRA  100 (725)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhhhHHHHHHHHHH
Confidence            358999999999999999743   456676666554 2 3344555544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.27  E-value=0.00013  Score=70.03  Aligned_cols=38  Identities=18%  Similarity=0.364  Sum_probs=30.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+.++|||||||||||++|+
T Consensus        19 IGQe~vv~~L~~ai~~-----------~-rl~Ha~Lf~GP~GvGKTTlAr   56 (709)
T PRK08691         19 VGQEHVVKALQNALDE-----------G-RLHHAYLLTGTRGVGKTTIAR   56 (709)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCcHHHHHH
Confidence            5788888888887765           1 345789999999999999985

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.26  E-value=0.00012  Score=72.43  Aligned_cols=53  Identities=25%  Similarity=0.210  Sum_probs=35.6

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---C--------CCccchhhhhhc-CCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---N--------SDKKDDKDKKKK-YEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---~--------~~~~~~f~~a~~-~~p~ii   83 (225)
                      ...+++|+||||||||++|+..             .+..++.+..+.   |        ..++++|+.++. ..++|+
T Consensus       207 ~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~IL  284 (852)
T TIGR03345       207 RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIIL  284 (852)
T ss_pred             CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEE
Confidence            4468999999999999998622             235566554443   1        244678887765 356775

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=97.25  E-value=0.00014  Score=64.65  Aligned_cols=41  Identities=20%  Similarity=0.247  Sum_probs=27.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +|.+++++.+.-....             ....++||+||||||||++|++.++
T Consensus        11 ~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~   51 (334)
T PRK13407         11 VGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAA   51 (334)
T ss_pred             CCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHH
Confidence            4666666655543322             1125899999999999999975433

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.24  E-value=0.00015  Score=69.30  Aligned_cols=38  Identities=24%  Similarity=0.354  Sum_probs=28.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|+..+..           | ..+.++|||||||||||++|+
T Consensus        19 vGQe~i~~~L~~~i~~-----------~-ri~ha~Lf~Gp~GvGKttlA~   56 (620)
T PRK14954         19 TAQEHITHTIQNSLRM-----------D-RVGHGYIFSGLRGVGKTTAAR   56 (620)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHH
Confidence            4677777776665443           2 455789999999999999985

>PRK06620 hypothetical protein; Validated

Probab=97.23  E-value=6.9e-05  Score=62.45  Aligned_cols=20  Identities=25%  Similarity=0.320  Sum_probs=18.0

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      +.++||||||||||+|+++.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~   64 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIW   64 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            78999999999999999743

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.23  E-value=0.00018  Score=68.77  Aligned_cols=18  Identities=39%  Similarity=0.787  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      ++++|+||||||||++|+
T Consensus        38 ~~~ll~G~pG~GKT~la~   55 (608)
T TIGR00764        38 RNVLLIGEPGVGKSMLAK   55 (608)
T ss_pred             CCEEEECCCCCCHHHHHH
Confidence            489999999999999997

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.22  E-value=0.00015  Score=63.11  Aligned_cols=39  Identities=26%  Similarity=0.390  Sum_probs=26.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|.+++++.+..++..           +  ...++|||||||||||++++..
T Consensus        20 ~g~~~~~~~l~~~i~~-----------~--~~~~~ll~G~~G~GKt~~~~~l   58 (319)
T PRK00440         20 VGQEEIVERLKSYVKE-----------K--NMPHLLFAGPPGTGKTTAALAL   58 (319)
T ss_pred             cCcHHHHHHHHHHHhC-----------C--CCCeEEEECCCCCCHHHHHHHH
Confidence            3566666666666533           1  1235899999999999999633

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.22  E-value=0.00013  Score=57.58  Aligned_cols=31  Identities=26%  Similarity=0.358  Sum_probs=24.8

Q ss_pred             CCCceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      .++..|+|+||||||||++|+   ...|.++++.
T Consensus         2 ~~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~   35 (175)
T PRK00131          2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDT   35 (175)
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            456789999999999999997   4456777754

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.22  E-value=0.00019  Score=66.33  Aligned_cols=38  Identities=21%  Similarity=0.379  Sum_probs=29.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+++++.|...+..           | ..+..+|||||||||||++|+
T Consensus        20 iGq~~~v~~L~~~i~~-----------~-~i~ha~Lf~Gp~G~GKtt~A~   57 (451)
T PRK06305         20 LGQDAVVAVLKNALRF-----------N-RAAHAYLFSGIRGTGKTTLAR   57 (451)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCceEEEEEcCCCCCHHHHHH
Confidence            5778888777777654           2 345789999999999999885

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.21  E-value=6.9e-05  Score=66.12  Aligned_cols=36  Identities=22%  Similarity=0.269  Sum_probs=29.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +...+.+||.||||||||++|+   +..|.+++.++...
T Consensus        61 l~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~   99 (327)
T TIGR01650        61 FAYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDS   99 (327)
T ss_pred             HhcCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecC
Confidence            3456899999999999999997   56778888777666

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.00019  Score=64.24  Aligned_cols=38  Identities=18%  Similarity=0.315  Sum_probs=28.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.+...+..           | ..+.++|||||||+|||++|.
T Consensus        20 ig~~~~~~~l~~~i~~-----------~-~~~~~~L~~G~~G~GKt~~a~   57 (367)
T PRK14970         20 VGQSHITNTLLNAIEN-----------N-HLAQALLFCGPRGVGKTTCAR   57 (367)
T ss_pred             CCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            4666666666666644           2 345799999999999999885

>PRK06893 DNA replication initiation factor; Validated

Probab=97.21  E-value=6.1e-05  Score=63.25  Aligned_cols=21  Identities=14%  Similarity=0.229  Sum_probs=17.6

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      ..++||||||||||+|+.+++
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~   60 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVS   60 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            357999999999999997544

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.20  E-value=0.00018  Score=69.50  Aligned_cols=38  Identities=29%  Similarity=0.414  Sum_probs=30.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|...+..           | ..+.++|||||||||||++|+
T Consensus        21 iGQe~~v~~L~~aI~~-----------~-rl~HAYLF~GP~GtGKTt~Ar   58 (725)
T PRK07133         21 VGQDHIVQTLKNIIKS-----------N-KISHAYLFSGPRGTGKTSVAK   58 (725)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCcHHHHHH
Confidence            5778888877777765           1 345789999999999999986

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.19  E-value=0.00022  Score=63.45  Aligned_cols=41  Identities=37%  Similarity=0.541  Sum_probs=28.3

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      |-++.++.|..++...+.        | ..+..+++|||||||||+++++
T Consensus        19 gRe~e~~~l~~~l~~~~~--------~-~~~~~i~I~G~~GtGKT~l~~~   59 (365)
T TIGR02928        19 HRDEQIEELAKALRPILR--------G-SRPSNVFIYGKTGTGKTAVTKY   59 (365)
T ss_pred             CcHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHH
Confidence            456666666666643111        2 3446899999999999999963

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.19  E-value=0.00018  Score=68.79  Aligned_cols=38  Identities=16%  Similarity=0.280  Sum_probs=30.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+++++.|...+..           + ..+..+||+||+|||||++|+
T Consensus        19 IGQe~vv~~L~~al~~-----------g-RLpHA~LFtGP~GvGKTTLAr   56 (700)
T PRK12323         19 VGQEHVVRALTHALEQ-----------Q-RLHHAYLFTGTRGVGKTTLSR   56 (700)
T ss_pred             cCcHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHH
Confidence            6888888888887765           1 345688999999999999985

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.18  E-value=0.00026  Score=66.72  Aligned_cols=33  Identities=42%  Similarity=0.682  Sum_probs=25.3

Q ss_pred             CCceeEEEcCCCCCCCccccccc-------------CCceeeccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL-------------GYHYYCRGAG   63 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~-------------~~~~~~~~~~   63 (225)
                      .+.++|||||||||||++|++..             +.+|+.++..
T Consensus        85 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~  130 (531)
T TIGR02902        85 NPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDAT  130 (531)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccc
Confidence            35789999999999999997431             3567777654

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>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=97.17  E-value=8.1e-05  Score=55.55  Aligned_cols=26  Identities=35%  Similarity=0.678  Sum_probs=19.6

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      |++.||||+||||+|+..   .|.+++++
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~   30 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISM   30 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEe
Confidence            689999999999999733   35555433

...

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.16  E-value=0.00022  Score=67.59  Aligned_cols=38  Identities=26%  Similarity=0.456  Sum_probs=30.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++.+.|+..+..           + ..+..+|||||+|||||++|+
T Consensus        19 iGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~GtGKTt~Ak   56 (559)
T PRK05563         19 VGQEHITKTLKNAIKQ-----------G-KISHAYLFSGPRGTGKTSAAK   56 (559)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5778888888777665           1 345789999999999999885

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.16  E-value=7.4e-05  Score=60.48  Aligned_cols=60  Identities=27%  Similarity=0.389  Sum_probs=33.0

Q ss_pred             CCCceeEEEcCCCCCCCcccccc------cCCceeeccCCC---------C-CCccchhhhhhcCCCCC-Cccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS---------N-SDKKDDKDKKKKYEPPI-PTRVGKKK   90 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~---------~-~~~~~~f~~a~~~~p~i-id~igk~r   90 (225)
                      ....|++|+||||||||++|.++      .|..++.++..+         . .+..+.++.... .+.+ ||-+|..+
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~-~dlLilDDlG~~~  121 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKR-VDLLILDDLGYEP  121 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHT-SSCEEEETCTSS-
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCcccc-ccEecccccceee
Confidence            45689999999999999999633      345555444333         1 122333443333 3444 48887554

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.14  E-value=0.00021  Score=67.99  Aligned_cols=38  Identities=21%  Similarity=0.453  Sum_probs=29.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+++++.|...+..           + ..+..+|||||||||||++|+
T Consensus        19 iGq~~~~~~L~~~i~~-----------~-~i~~a~Lf~Gp~G~GKTtlA~   56 (585)
T PRK14950         19 VGQEHVVQTLRNAIAE-----------G-RVAHAYLFTGPRGVGKTSTAR   56 (585)
T ss_pred             cCCHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHH
Confidence            5788888887776654           1 234578999999999999986

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.14  E-value=0.00023  Score=66.27  Aligned_cols=38  Identities=29%  Similarity=0.496  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+.+.|...+..           + ..+..+|||||||||||++|+
T Consensus        19 iGq~~i~~~L~~~i~~-----------~-~i~hayLf~Gp~G~GKTtlAr   56 (486)
T PRK14953         19 IGQEIVVRILKNAVKL-----------Q-RVSHAYIFAGPRGTGKTTIAR   56 (486)
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777777777776644           1 344678999999999999986

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.13  E-value=0.00021  Score=68.09  Aligned_cols=38  Identities=21%  Similarity=0.420  Sum_probs=30.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           | ..+.++|||||+|+|||++|+
T Consensus        27 iGq~~~v~~L~~~~~~-----------g-ri~ha~L~~Gp~GvGKTt~Ar   64 (598)
T PRK09111         27 IGQEAMVRTLTNAFET-----------G-RIAQAFMLTGVRGVGKTTTAR   64 (598)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            5777788777776654           2 346799999999999999986

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.13  E-value=0.00022  Score=69.06  Aligned_cols=38  Identities=16%  Similarity=0.314  Sum_probs=30.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+++++.|..++..           + ..+..+|||||+|||||++|+
T Consensus        19 IGQe~Vv~~L~~aL~~-----------g-RL~HAyLFtGPpGvGKTTlAr   56 (830)
T PRK07003         19 VGQEHVVRALTHALDG-----------G-RLHHAYLFTGTRGVGKTTLSR   56 (830)
T ss_pred             cCcHHHHHHHHHHHhc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5788888888777654           2 345688999999999999885

>PRK06526 transposase; Provisional

Probab=97.12  E-value=0.00011  Score=62.92  Aligned_cols=21  Identities=43%  Similarity=0.654  Sum_probs=18.3

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      ...+++|+||||||||++|.+
T Consensus        97 ~~~nlll~Gp~GtGKThLa~a  117 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIG  117 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHH
Confidence            356999999999999999963

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.00023  Score=67.71  Aligned_cols=38  Identities=16%  Similarity=0.353  Sum_probs=30.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|...+..           | ..+..+|||||||||||++|+
T Consensus        19 iGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~G~GKtt~A~   56 (576)
T PRK14965         19 TGQEHVSRTLQNAIDT-----------G-RVAHAFLFTGARGVGKTSTAR   56 (576)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5788888888877654           2 345788999999999999885

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.11  E-value=0.00018  Score=60.20  Aligned_cols=25  Identities=40%  Similarity=0.652  Sum_probs=21.2

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      +.-+|+||+||+|||++|+..++.+
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~~~   36 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPGKT   36 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCCCC
Confidence            4569999999999999998777633

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>PRK12377 putative replication protein; Provisional

Probab=97.10  E-value=9.7e-05  Score=62.97  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=18.5

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      ..+++|+||||||||+||.+++
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa  122 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIG  122 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3689999999999999996433

>PHA02244 ATPase-like protein

Probab=97.09  E-value=0.00015  Score=65.07  Aligned_cols=32  Identities=28%  Similarity=0.388  Sum_probs=25.9

Q ss_pred             CCCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .....+||+||||||||++|+   +..+.+|+.++
T Consensus       117 ~~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In  151 (383)
T PHA02244        117 NANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMN  151 (383)
T ss_pred             hcCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEe
Confidence            345789999999999999997   44678888665

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.09  E-value=0.00027  Score=67.55  Aligned_cols=38  Identities=16%  Similarity=0.267  Sum_probs=29.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+..+|||||+|||||++|+
T Consensus        19 iGQe~vv~~L~~~l~~-----------~-rl~ha~Lf~Gp~GvGKTtlAr   56 (618)
T PRK14951         19 VGQEHVVQALTNALTQ-----------Q-RLHHAYLFTGTRGVGKTTVSR   56 (618)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777888777776655           1 345688999999999999986

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.09  E-value=0.00026  Score=67.83  Aligned_cols=38  Identities=18%  Similarity=0.373  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           | ..+..+|||||||||||++|+
T Consensus        19 vGQe~vv~~L~~~l~~-----------~-rl~hAyLf~Gp~GvGKTTlAr   56 (647)
T PRK07994         19 VGQEHVLTALANALDL-----------G-RLHHAYLFSGTRGVGKTTIAR   56 (647)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5777888777766654           2 345678999999999999986

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.08  E-value=0.00011  Score=64.43  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=19.1

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+|++||||||||||+|+.++
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Ai  176 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAI  176 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999644

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.08  E-value=0.00023  Score=70.59  Aligned_cols=53  Identities=21%  Similarity=0.198  Sum_probs=36.3

Q ss_pred             CCceeEEEcCCCCCCCccccc-------------ccCCceeeccCCC---C--------CCccchhhhhhcC-CCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP-------------ALGYHYYCRGAGS---N--------SDKKDDKDKKKKY-EPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~-------------~~~~~~~~~~~~~---~--------~~~~~~f~~a~~~-~p~ii   83 (225)
                      ....++|+||||||||+++..             ..+.+++.+..+.   |        ..++.+|+.+... .|+|+
T Consensus       193 ~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~IL  270 (852)
T TIGR03346       193 TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIIL  270 (852)
T ss_pred             CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEE
Confidence            456889999999999999851             1356677665443   2        2346778777554 57775

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.07  E-value=0.00033  Score=67.13  Aligned_cols=38  Identities=21%  Similarity=0.338  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|...+..           + ....++|||||||||||++|+
T Consensus        19 iGq~~i~~~L~~~l~~-----------~-rl~~a~Lf~Gp~G~GKttlA~   56 (620)
T PRK14948         19 VGQEAIATTLKNALIS-----------N-RIAPAYLFTGPRGTGKTSSAR   56 (620)
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCChHHHHH
Confidence            5777788777777765           1 133589999999999999985

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.07  E-value=0.00013  Score=60.77  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=19.4

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ....+++|+||||||||++|++.
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai   62 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQAL   62 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHH
Confidence            45578999999999999999743

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.05  E-value=0.0003  Score=66.61  Aligned_cols=38  Identities=32%  Similarity=0.454  Sum_probs=30.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|+..+..           | ..+..+|||||||+|||++|+
T Consensus        19 iGqe~iv~~L~~~i~~-----------~-~i~hayLf~Gp~G~GKTt~Ar   56 (563)
T PRK06647         19 EGQDFVVETLKHSIES-----------N-KIANAYIFSGPRGVGKTSSAR   56 (563)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            5788888887777754           2 245689999999999999886

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=97.05  E-value=0.00034  Score=62.49  Aligned_cols=38  Identities=24%  Similarity=0.315  Sum_probs=30.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|++++|.+|.-....|             ...|+||+||+|||||++|+.
T Consensus        20 vGq~~~k~al~~~~~~p-------------~~~~vli~G~~GtGKs~~ar~   57 (350)
T CHL00081         20 VGQEEMKLALILNVIDP-------------KIGGVMIMGDRGTGKSTTIRA   57 (350)
T ss_pred             hChHHHHHHHHHhccCC-------------CCCeEEEEcCCCCCHHHHHHH
Confidence            58888888777666652             235999999999999999973

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.04  E-value=0.00011  Score=62.76  Aligned_cols=61  Identities=26%  Similarity=0.255  Sum_probs=38.9

Q ss_pred             CCceeEEEcCCCCCCCccccc------ccCCceeeccCCCC-CCccchhhh-------hh--cCCCC-CCcccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGSN-SDKKDDKDK-------KK--KYEPP-IPTRVGKKKR   91 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~~-~~~~~~f~~-------a~--~~~p~-iid~igk~r~   91 (225)
                      ...+++||||||+|||+||.+      ..|..++.++..+. +.++..|..       .+  ...+- |||-+|.-..
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~  181 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPF  181 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCccC
Confidence            567999999999999999953      34577777777773 333332221       12  22333 3488887654

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.03  E-value=0.00016  Score=60.95  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=17.9

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ...++||||||||||+++.+.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~   65 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAA   65 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            358999999999999998643

>PRK08181 transposase; Validated

Probab=97.02  E-value=0.00014  Score=62.68  Aligned_cols=33  Identities=24%  Similarity=0.495  Sum_probs=23.8

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAG   63 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~   63 (225)
                      ...+++|+||||||||+||.++      .|..++.++..
T Consensus       105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~  143 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTT  143 (269)
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHH
Confidence            4578999999999999999643      34455544443

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.02  E-value=0.00018  Score=53.25  Aligned_cols=50  Identities=24%  Similarity=0.407  Sum_probs=30.1

Q ss_pred             eEEEcCCCCCCCccccccc-----------CCceeeccCCCCCCccchhhhhhcCCCCCC-ccccccc
Q psy7782          35 VILYGPPGTGKTLPFSPAL-----------GYHYYCRGAGSNSDKKDDKDKKKKYEPPIP-TRVGKKK   90 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~-----------~~~~~~~~~~~~~~~~~~f~~a~~~~p~ii-d~igk~r   90 (225)
                      |.||||||||||++|...+           ...++....++      -|-.--..+|+++ |-++...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~------~~w~gY~~q~vvi~DD~~~~~   62 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGD------KFWDGYQGQPVVIIDDFGQDN   62 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCcc------chhhccCCCcEEEEeecCccc
Confidence            5799999999999997422           23333333333      2333333567776 6666554

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK08118 topology modulation protein; Reviewed

Probab=97.01  E-value=0.00022  Score=57.07  Aligned_cols=29  Identities=28%  Similarity=0.303  Sum_probs=22.8

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +.|++.||||+||||+|+   ...+.+++++.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD   33 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLD   33 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence            368999999999999997   45567766553

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.99  E-value=0.00022  Score=63.29  Aligned_cols=32  Identities=31%  Similarity=0.461  Sum_probs=23.4

Q ss_pred             ceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      .+++||||||||||+||.+++      |..++.++..+
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~  221 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADE  221 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHH
Confidence            799999999999999996443      34455444443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.96  E-value=0.00042  Score=68.70  Aligned_cols=43  Identities=30%  Similarity=0.560  Sum_probs=31.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC---CCce-eEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK---PPKG-VILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~---~~~g-iLl~GppGtGKT~la~~   51 (225)
                      +|.++..+.+.+.+...        +.|+.   .|.| +||+||||||||.+|++
T Consensus       569 ~GQ~~Av~~v~~~i~~~--------~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~  615 (852)
T TIGR03345       569 IGQDHALEAIAERIRTA--------RAGLEDPRKPLGVFLLVGPSGVGKTETALA  615 (852)
T ss_pred             cChHHHHHHHHHHHHHH--------hcCCCCCCCCceEEEEECCCCCCHHHHHHH
Confidence            58888888888888652        12222   2445 79999999999999963

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK06921 hypothetical protein; Provisional

Probab=96.95  E-value=0.00026  Score=60.93  Aligned_cols=22  Identities=36%  Similarity=0.643  Sum_probs=18.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...+++|+||||||||+|+.++
T Consensus       116 ~~~~l~l~G~~G~GKThLa~ai  137 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAA  137 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHH
Confidence            3578999999999999998643

>PRK08116 hypothetical protein; Validated

Probab=96.95  E-value=0.00015  Score=62.42  Aligned_cols=34  Identities=26%  Similarity=0.294  Sum_probs=24.8

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      ...|++||||||||||+||.++      .+.+++.++..+
T Consensus       113 ~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~  152 (268)
T PRK08116        113 ENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQ  152 (268)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            3468999999999999999643      245666555443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.94  E-value=0.00042  Score=68.28  Aligned_cols=38  Identities=18%  Similarity=0.384  Sum_probs=28.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+..+|||||+|||||++|+
T Consensus        18 iGqe~v~~~L~~~i~~-----------~-ri~Ha~Lf~Gp~G~GKTt~A~   55 (824)
T PRK07764         18 IGQEHVTEPLSTALDS-----------G-RINHAYLFSGPRGCGKTSSAR   55 (824)
T ss_pred             cCcHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            5777777777666654           2 344678999999999999885

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.92  E-value=0.00052  Score=67.87  Aligned_cols=43  Identities=21%  Similarity=0.471  Sum_probs=31.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC----CCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI----KPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~----~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.+++++.|...+..        .+.|+    .|...+||+||||||||.+|++
T Consensus       512 ~GQ~~ai~~l~~~i~~--------~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~  558 (821)
T CHL00095        512 IGQDEAVVAVSKAIRR--------ARVGLKNPNRPIASFLFSGPTGVGKTELTKA  558 (821)
T ss_pred             cChHHHHHHHHHHHHH--------HhhcccCCCCCceEEEEECCCCCcHHHHHHH
Confidence            5888888888887765        12222    2233579999999999999973

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.00038  Score=61.48  Aligned_cols=61  Identities=20%  Similarity=0.254  Sum_probs=43.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC-CCCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI-KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~-~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      ||.++.|+.+.-.+.-.++...+-..+.- -.|+.||..||.|.|||-+|+   ..+|+||+-+-
T Consensus        18 IGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVE   82 (444)
T COG1220          18 IGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVE   82 (444)
T ss_pred             cCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEE
Confidence            57888888777666554433333333322 258999999999999999997   67889999553

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.90  E-value=0.001  Score=50.84  Aligned_cols=41  Identities=22%  Similarity=0.379  Sum_probs=26.6

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCcee--EEEcCCCCCCCcccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGV--ILYGPPGTGKTLPFS   50 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~gi--Ll~GppGtGKT~la~   50 (225)
                      |..-+.+.+...+...+..+        .+.+.+  -||||||||||.+++
T Consensus        29 GQhla~~~v~~ai~~~l~~~--------~p~KpLVlSfHG~tGtGKn~v~~   71 (127)
T PF06309_consen   29 GQHLAVEVVVNAIKGHLANP--------NPRKPLVLSFHGWTGTGKNFVSR   71 (127)
T ss_pred             CcHHHHHHHHHHHHHHHcCC--------CCCCCEEEEeecCCCCcHHHHHH
Confidence            55555666666665534222        344444  499999999999886

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.89  E-value=0.00047  Score=65.78  Aligned_cols=38  Identities=13%  Similarity=0.171  Sum_probs=28.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+.+++.|...+..           + ..+..+|||||||||||++|+
T Consensus        19 iGQe~v~~~L~~ai~~-----------~-ri~ha~Lf~GPpG~GKTtiAr   56 (624)
T PRK14959         19 AGQETVKAILSRAAQE-----------N-RVAPAYLFSGTRGVGKTTIAR   56 (624)
T ss_pred             cCCHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            4667777766666654           1 224589999999999999985

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=96.88  E-value=0.00064  Score=54.55  Aligned_cols=35  Identities=20%  Similarity=0.243  Sum_probs=26.9

Q ss_pred             CCCceeEEEcCCCCCCCccccc------ccCCceeeccCCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGS   64 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~   64 (225)
                      ..+..|||+|++||||+++|++      -.+.||+.++.+.
T Consensus        20 ~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~   60 (168)
T PF00158_consen   20 SSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAA   60 (168)
T ss_dssp             TSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTT
T ss_pred             CCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhh
Confidence            3457999999999999999972      2457899988877

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.87  E-value=0.00042  Score=55.11  Aligned_cols=39  Identities=21%  Similarity=0.460  Sum_probs=21.4

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |=++..+.|...+..          ..-..++.++++||||+|||++.+
T Consensus         4 gR~~e~~~l~~~l~~----------~~~~~~~~~ll~G~~G~GKT~ll~   42 (185)
T PF13191_consen    4 GREEEIERLRDLLDA----------AQSGSPRNLLLTGESGSGKTSLLR   42 (185)
T ss_dssp             T-HHHHHHHHHTTGG----------TSS-----EEE-B-TTSSHHHHHH
T ss_pred             CHHHHHHHHHHHHHH----------HHcCCCcEEEEECCCCCCHHHHHH
Confidence            445566666655531          112345899999999999999985

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.85  E-value=0.00023  Score=54.46  Aligned_cols=19  Identities=42%  Similarity=0.749  Sum_probs=16.3

Q ss_pred             eEEEcCCCCCCCccccccc
Q psy7782          35 VILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~   53 (225)
                      +++.||||+|||++|+..+
T Consensus         2 ii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6899999999999997433

...

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.85  E-value=0.00072  Score=63.44  Aligned_cols=20  Identities=40%  Similarity=0.732  Sum_probs=16.3

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      +.+=+||+||||||||++++
T Consensus        44 ~~~iLlLtGP~G~GKtttv~   63 (519)
T PF03215_consen   44 PKRILLLTGPSGCGKTTTVK   63 (519)
T ss_pred             CcceEEEECCCCCCHHHHHH
Confidence            34556789999999999875

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.84  E-value=0.001  Score=59.79  Aligned_cols=34  Identities=35%  Similarity=0.620  Sum_probs=24.6

Q ss_pred             CCceeEEEcCCCCCCCccccccc--------CCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~~   64 (225)
                      .+..+++|||||||||++++..+        +..++.++...
T Consensus        54 ~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~   95 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQI   95 (394)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCc
Confidence            34679999999999999996332        35566665544

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.84  E-value=0.00031  Score=65.04  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=19.8

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      .....+||+||||||||++|++.
T Consensus        37 lag~hVLL~GpPGTGKT~LAraL   59 (498)
T PRK13531         37 LSGESVFLLGPPGIAKSLIARRL   59 (498)
T ss_pred             ccCCCEEEECCCChhHHHHHHHH
Confidence            45689999999999999999743

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=96.83  E-value=0.00044  Score=63.53  Aligned_cols=20  Identities=50%  Similarity=0.803  Sum_probs=18.4

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.++|+||||||||++|+
T Consensus       193 ~~~~iil~GppGtGKT~lA~  212 (459)
T PRK11331        193 IKKNIILQGPPGVGKTFVAR  212 (459)
T ss_pred             cCCCEEEECCCCCCHHHHHH
Confidence            46899999999999999996

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.82  E-value=0.00027  Score=60.09  Aligned_cols=32  Identities=25%  Similarity=0.309  Sum_probs=23.3

Q ss_pred             ceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      .+++|+||||||||+|+.+++      |..++.++.++
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~  137 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVAD  137 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHH
Confidence            589999999999999986333      45555554444

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.82  E-value=0.00063  Score=63.97  Aligned_cols=38  Identities=13%  Similarity=0.242  Sum_probs=29.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.|...+..           | ..+..+|||||||||||++|+
T Consensus        17 iGqe~v~~~L~~~I~~-----------g-rl~hayLf~Gp~G~GKTt~Ar   54 (535)
T PRK08451         17 IGQESVSKTLSLALDN-----------N-RLAHAYLFSGLRGSGKTSSAR   54 (535)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCcHHHHHH
Confidence            5778888877777654           2 345678999999999999886

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.81  E-value=0.00027  Score=56.70  Aligned_cols=18  Identities=33%  Similarity=0.612  Sum_probs=15.8

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      |+++||||+|||++|+..
T Consensus         2 i~i~G~pGsGKst~a~~l   19 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKI   19 (183)
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            689999999999999743

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.80  E-value=0.00076  Score=60.64  Aligned_cols=38  Identities=16%  Similarity=0.239  Sum_probs=30.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|...+..           | ..+.++||+||+|+||+++|.
T Consensus        22 iGq~~~~~~L~~~~~~-----------~-rl~HA~Lf~Gp~G~GK~~lA~   59 (365)
T PRK07471         22 FGHAAAEAALLDAYRS-----------G-RLHHAWLIGGPQGIGKATLAY   59 (365)
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            5778888888776665           2 456789999999999999985

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.78  E-value=0.00066  Score=67.41  Aligned_cols=45  Identities=18%  Similarity=0.420  Sum_probs=30.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC----CCceeEEEcCCCCCCCccccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK----PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~----~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +|.+.+.+.|.+.+..        ...|+.    |...+||+||||||||++|++++
T Consensus       571 iGQ~~ai~~l~~~i~~--------~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa  619 (857)
T PRK10865        571 IGQNEAVEAVSNAIRR--------SRAGLSDPNRPIGSFLFLGPTGVGKTELCKALA  619 (857)
T ss_pred             eCCHHHHHHHHHHHHH--------HHhcccCCCCCCceEEEECCCCCCHHHHHHHHH
Confidence            4777777777777755        112222    22358999999999999997443

>KOG1803|consensus

Probab=96.77  E-value=0.002  Score=60.61  Aligned_cols=18  Identities=50%  Similarity=0.833  Sum_probs=15.4

Q ss_pred             CceeEEEcCCCCCCCccc
Q psy7782          32 PKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la   49 (225)
                      ..-.++|||||||||...
T Consensus       201 k~l~~I~GPPGTGKT~Tl  218 (649)
T KOG1803|consen  201 KDLLIIHGPPGTGKTRTL  218 (649)
T ss_pred             CCceEeeCCCCCCceeeH
Confidence            356789999999999965

>PRK14532 adenylate kinase; Provisional

Probab=96.76  E-value=0.00049  Score=55.56  Aligned_cols=26  Identities=31%  Similarity=0.551  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      .++|.||||+||||+|+.   ..|+.+++
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is   30 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLS   30 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            489999999999999973   34555543

>PHA00729 NTP-binding motif containing protein

Probab=96.75  E-value=0.00032  Score=58.90  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=18.1

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      ..++++|+||||||++|.+++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa   38 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVA   38 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999997543

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.75  E-value=0.00069  Score=58.90  Aligned_cols=19  Identities=47%  Similarity=1.024  Sum_probs=16.7

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      +..+|||||||||||++|.
T Consensus        24 ~halL~~Gp~G~Gktt~a~   42 (325)
T COG0470          24 PHALLFYGPPGVGKTTAAL   42 (325)
T ss_pred             CceeeeeCCCCCCHHHHHH
Confidence            3479999999999999884

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=96.75  E-value=0.00055  Score=65.59  Aligned_cols=21  Identities=52%  Similarity=0.915  Sum_probs=18.3

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      .+..++|+||||||||++|+.
T Consensus       174 ~~~~vlL~Gp~GtGKTTLAr~  194 (615)
T TIGR02903       174 FPQHIILYGPPGVGKTTAARL  194 (615)
T ss_pred             CCCeEEEECCCCCCHHHHHHH
Confidence            456799999999999999973

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK09183 transposase/IS protein; Provisional

Probab=96.74  E-value=0.00036  Score=59.78  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ....+++|+||||||||++|.+.
T Consensus       100 ~~~~~v~l~Gp~GtGKThLa~al  122 (259)
T PRK09183        100 ERNENIVLLGPSGVGKTHLAIAL  122 (259)
T ss_pred             hcCCeEEEEeCCCCCHHHHHHHH
Confidence            34568999999999999999744

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.72  E-value=0.0011  Score=65.95  Aligned_cols=44  Identities=20%  Similarity=0.474  Sum_probs=30.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC----CCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI----KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~----~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|.+++.+.+.+.+...        ..|+    .|...+||+||||||||++|++.
T Consensus       568 ~GQ~~av~~v~~~i~~~--------~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~L  615 (852)
T TIGR03346       568 VGQDEAVEAVSDAIRRS--------RAGLSDPNRPIGSFLFLGPTGVGKTELAKAL  615 (852)
T ss_pred             CCChHHHHHHHHHHHHH--------hccCCCCCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            47777777777777651        1222    23456899999999999999733

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PF13479 AAA_24: AAA domain

Probab=96.70  E-value=0.00073  Score=56.10  Aligned_cols=31  Identities=29%  Similarity=0.517  Sum_probs=23.6

Q ss_pred             ceeEEEcCCCCCCCcccccccCCceeeccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYYCRGAG   63 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~~~~~~   63 (225)
                      --+++|||||+|||++|...-+.-|+..-.|
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~~k~l~id~E~g   34 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASLPKPLFIDTENG   34 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhCCCeEEEEeCCC
Confidence            4689999999999999987744545555444

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.70  E-value=0.00042  Score=56.83  Aligned_cols=16  Identities=50%  Similarity=1.020  Sum_probs=12.9

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      .++.||||||||+++.
T Consensus        20 ~~i~GpPGTGKT~~l~   35 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLA   35 (236)
T ss_dssp             EEEE-STTSSHHHHHH
T ss_pred             EEEECCCCCChHHHHH
Confidence            7899999999998653

>PRK03839 putative kinase; Provisional

Probab=96.69  E-value=0.00048  Score=55.29  Aligned_cols=27  Identities=37%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      -|+|.|+||+||||+++   ...+.+++++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~   31 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDL   31 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            38899999999999997   3346677653

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.69  E-value=0.00081  Score=64.48  Aligned_cols=42  Identities=19%  Similarity=0.367  Sum_probs=26.6

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      |.++..+.|..++...        .++..+.+-++|+||||||||++++.
T Consensus        88 ~~~~ki~~l~~~l~~~--------~~~~~~~~illL~GP~GsGKTTl~~~  129 (637)
T TIGR00602        88 VHKKKIEEVETWLKAQ--------VLENAPKRILLITGPSGCGKSTTIKI  129 (637)
T ss_pred             CcHHHHHHHHHHHHhc--------ccccCCCcEEEEECCCCCCHHHHHHH
Confidence            3444555555554431        12233445689999999999998863

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

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.68  E-value=0.00055  Score=53.06  Aligned_cols=28  Identities=32%  Similarity=0.370  Sum_probs=22.0

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeecc
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCRG   61 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~~   61 (225)
                      .|+|+||||||||++|+.   ..|.++++..
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            378999999999999973   4477777543

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK13947 shikimate kinase; Provisional

Probab=96.67  E-value=0.00063  Score=53.92  Aligned_cols=28  Identities=29%  Similarity=0.399  Sum_probs=23.1

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .|+|.||||||||++|+   ...|.+|++..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            58999999999999996   45678887544

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.66  E-value=0.00085  Score=59.70  Aligned_cols=41  Identities=24%  Similarity=0.279  Sum_probs=31.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +|.+++|.+|.-....|             ...|++|.||||||||+++++.++
T Consensus         7 vgq~~~~~al~~~~~~~-------------~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         7 VGQDEMKLALLLNVIDP-------------KIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             ccHHHHHHHHHHHhcCC-------------CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            57788877765555442             235899999999999999987765

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.65  E-value=0.0011  Score=58.25  Aligned_cols=38  Identities=24%  Similarity=0.299  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+++.+...+..           | ..+..+|||||+|+|||++|.
T Consensus         7 ~g~~~~~~~l~~~~~~-----------~-~~~ha~Lf~G~~G~Gk~~la~   44 (313)
T PRK05564          7 IGHENIKNRIKNSIIK-----------N-RFSHAHIIVGEDGIGKSLLAK   44 (313)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCceEEeECCCCCCHHHHHH
Confidence            4777777777776633           2 455788999999999999995

>PRK14531 adenylate kinase; Provisional

Probab=96.64  E-value=0.00069  Score=54.75  Aligned_cols=18  Identities=33%  Similarity=0.779  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-|+++||||+|||++++
T Consensus         3 ~~i~i~G~pGsGKsT~~~   20 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAA   20 (183)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            469999999999999986

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.63  E-value=0.00068  Score=52.62  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=18.6

Q ss_pred             eEEEcCCCCCCCcccc---cccCCcee
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~   58 (225)
                      ++|.||||+|||++|+   ...+..++
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i   28 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFI   28 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEE
Confidence            6899999999999997   33455444

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.63  E-value=0.0011  Score=59.36  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=29.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|.+++++.|...+..           | ..+.++||+||+|+|||++|...
T Consensus        26 ~Gh~~a~~~L~~a~~~-----------g-rl~ha~L~~G~~G~GKttlA~~l   65 (351)
T PRK09112         26 FGHEEAEAFLAQAYRE-----------G-KLHHALLFEGPEGIGKATLAFHL   65 (351)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeeEeeECCCCCCHHHHHHHH
Confidence            4666666666665554           2 34568999999999999999633

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.63  E-value=0.00072  Score=57.66  Aligned_cols=39  Identities=28%  Similarity=0.359  Sum_probs=32.0

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGSN   65 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~~   65 (225)
                      -|++..+-+|++|+||||||+++.      +..|-+.+.++..+.
T Consensus        18 GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~   62 (260)
T COG0467          18 GGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES   62 (260)
T ss_pred             CCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCC
Confidence            467888899999999999999984      555788888777774

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.58  E-value=0.00043  Score=55.67  Aligned_cols=34  Identities=24%  Similarity=0.226  Sum_probs=23.9

Q ss_pred             CCceeEEEcCCCCCCCccccccc---C----CceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL---G----YHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~---~----~~~~~~~~~~   64 (225)
                      |...+||.||+|||||.+|++.+   .    .+++.++.++
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~   42 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSE   42 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhc
Confidence            45578999999999999997333   2    2666555554

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PRK13949 shikimate kinase; Provisional

Probab=96.58  E-value=0.00077  Score=53.99  Aligned_cols=29  Identities=28%  Similarity=0.301  Sum_probs=23.3

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +.|+|.||||+|||++++   ...+.++++..
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            469999999999999997   44567777654

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.57  E-value=0.00065  Score=54.44  Aligned_cols=27  Identities=22%  Similarity=0.471  Sum_probs=21.1

Q ss_pred             eeEEEcCCCCCCCccccccc---CCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSPAL---GYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~---~~~~~~~   60 (225)
                      -+++.||||+||||+|+..+   |...++.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            57899999999999998555   6655543

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.57  E-value=0.00049  Score=63.45  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=17.9

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+++||||||||||+|+.++
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai  168 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAI  168 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            367999999999999999633

>PRK05642 DNA replication initiation factor; Validated

Probab=96.56  E-value=0.00049  Score=58.03  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.1

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ...++||||+|||||+|+.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~   65 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAA   65 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            368899999999999998754

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.56  E-value=0.00094  Score=56.28  Aligned_cols=38  Identities=29%  Similarity=0.308  Sum_probs=28.8

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGS   64 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~   64 (225)
                      -|+++...+|++||||||||++|.      +..|-+.+.++..+
T Consensus        16 GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee   59 (237)
T TIGR03877        16 GGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE   59 (237)
T ss_pred             CCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence            378888999999999999999984      23455666555544

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.54  E-value=0.00082  Score=59.39  Aligned_cols=36  Identities=36%  Similarity=0.496  Sum_probs=29.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +...+.+||-||||||||++|+   ...+.+|+.+....
T Consensus        40 ~~~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~   78 (329)
T COG0714          40 LLAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTP   78 (329)
T ss_pred             HHcCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCC
Confidence            3456899999999999999997   55678888777665

>KOG1969|consensus

Probab=96.54  E-value=0.0012  Score=63.33  Aligned_cols=35  Identities=37%  Similarity=0.537  Sum_probs=30.3

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN   65 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~   65 (225)
                      +.+=+||+||||-||||||.   .-+|..++.+++++-
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaGYsVvEINASDe  362 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDE  362 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcCceEEEeccccc
Confidence            34556899999999999996   779999999999993

>KOG1942|consensus

Probab=96.53  E-value=0.0011  Score=57.73  Aligned_cols=34  Identities=32%  Similarity=0.426  Sum_probs=27.3

Q ss_pred             CCceeEEEcCCCCCCCcccc---ccc--CCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PAL--GYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~--~~~~~~~~~~~   64 (225)
                      ..|++||.||||||||.+|-   .+.  +.||..+.+++
T Consensus        63 aGravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSE  101 (456)
T KOG1942|consen   63 AGRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSE  101 (456)
T ss_pred             cCcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchh
Confidence            46899999999999999984   333  47888777776

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.53  E-value=0.00084  Score=54.13  Aligned_cols=25  Identities=32%  Similarity=0.607  Sum_probs=19.4

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceee
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      |+++||||+|||++|+..   .|..+++
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~   29 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIS   29 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEE
Confidence            789999999999999733   3555544

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.52  E-value=0.00076  Score=54.18  Aligned_cols=28  Identities=32%  Similarity=0.473  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCCCCcccc--cccCCceeecc
Q psy7782          34 GVILYGPPGTGKTLPFS--PALGYHYYCRG   61 (225)
Q Consensus        34 giLl~GppGtGKT~la~--~~~~~~~~~~~   61 (225)
                      -|++.|.||||||++|+  +..|.+.++++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLRELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHHHhCCceeeHH
Confidence            37899999999999997  45677766554

>PRK07261 topology modulation protein; Provisional

Probab=96.51  E-value=0.0009  Score=53.65  Aligned_cols=27  Identities=15%  Similarity=0.166  Sum_probs=20.6

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      -|++.||||+||||+|+.   ..+.+++++
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~   31 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHL   31 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEec
Confidence            378999999999999973   345565544

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.51  E-value=0.00054  Score=62.23  Aligned_cols=32  Identities=19%  Similarity=0.187  Sum_probs=23.3

Q ss_pred             CceeEEEcCCCCCCCccccccc--------CCceeeccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAG   63 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~   63 (225)
                      ..+++||||||||||+|+.+++        +..++.++..
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~  175 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE  175 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH
Confidence            4578999999999999996433        4555555543

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.50  E-value=0.0011  Score=54.40  Aligned_cols=23  Identities=39%  Similarity=0.683  Sum_probs=20.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-++++||||||||++|.
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~   30 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICM   30 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHH
Confidence            67777888999999999999984

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.50  E-value=0.00053  Score=63.16  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=18.3

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      ..+++||||||||||+|+.+++
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~  151 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIG  151 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Confidence            3579999999999999997433

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.49  E-value=0.0012  Score=59.21  Aligned_cols=22  Identities=50%  Similarity=0.979  Sum_probs=19.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+++|+.||||+|||||+|..
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd   80 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMD   80 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHH
Confidence            4579999999999999999863

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PF13245 AAA_19: Part of AAA domain

Probab=96.47  E-value=0.00094  Score=46.49  Aligned_cols=15  Identities=53%  Similarity=1.050  Sum_probs=12.2

Q ss_pred             eEEEcCCCCCCCccc
Q psy7782          35 VILYGPPGTGKTLPF   49 (225)
Q Consensus        35 iLl~GppGtGKT~la   49 (225)
                      +++.||||||||+++
T Consensus        13 ~vv~g~pGtGKT~~~   27 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTL   27 (76)
T ss_pred             EEEECCCCCCHHHHH
Confidence            445999999999655

>PRK00625 shikimate kinase; Provisional

Probab=96.46  E-value=0.00086  Score=54.06  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=23.2

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .|+|.|+||+|||++++   ...|.+|+++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            48999999999999997   44578887664

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.46  E-value=0.00097  Score=57.08  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..-+|++||||||||++|.
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~   54 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVE   54 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHH
Confidence            67788888999999999999884

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PHA02624 large T antigen; Provisional

Probab=96.45  E-value=0.00085  Score=63.55  Aligned_cols=34  Identities=18%  Similarity=0.173  Sum_probs=24.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccc---cCCceeecc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRG   61 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~   61 (225)
                      |++..+-++||||||||||+++.+.   .|-..++++
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVN  463 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVN  463 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEee
Confidence            4566779999999999999999733   333344444

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.44  E-value=0.00057  Score=52.75  Aligned_cols=18  Identities=33%  Similarity=0.706  Sum_probs=15.5

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      ++++||||||||+++...
T Consensus         2 ~~i~G~~G~GKT~l~~~i   19 (165)
T cd01120           2 ILVFGPTGSGKTTLALQL   19 (165)
T ss_pred             eeEeCCCCCCHHHHHHHH
Confidence            589999999999998633

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.43  E-value=0.00065  Score=62.64  Aligned_cols=31  Identities=29%  Similarity=0.465  Sum_probs=23.3

Q ss_pred             CceeEEEcCCCCCCCccccccc------CCceeeccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL------GYHYYCRGA   62 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~------~~~~~~~~~   62 (225)
                      ..+++||||||+|||+|+++.+      +..++.++.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~  177 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS  177 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence            3689999999999999997443      455555544

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.42  E-value=0.00098  Score=53.34  Aligned_cols=30  Identities=33%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             eEEEcCCCCCCCcccc------cccCCceeeccCCC
Q psy7782          35 VILYGPPGTGKTLPFS------PALGYHYYCRGAGS   64 (225)
Q Consensus        35 iLl~GppGtGKT~la~------~~~~~~~~~~~~~~   64 (225)
                      +|++||||||||+++.      +..|-+.+.++.-+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~   37 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE   37 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC
Confidence            6899999999999884      23445555444433

A related protein is found in archaea.

>KOG3347|consensus

Probab=96.40  E-value=0.0013  Score=51.70  Aligned_cols=29  Identities=28%  Similarity=0.478  Sum_probs=22.9

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      -.||+.|-||||||++|.   ...|.+++.++
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            489999999999999996   44566666543

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=96.40  E-value=0.00041  Score=53.19  Aligned_cols=29  Identities=34%  Similarity=0.430  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeeccC
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCRGA   62 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~~~   62 (225)
                      ++||.|+||+|||++|+   ...|..|-.+..
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~   32 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQF   32 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE-
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEe
Confidence            48999999999999997   445666665544

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>KOG0991|consensus

Probab=96.40  E-value=0.0024  Score=53.95  Aligned_cols=47  Identities=30%  Similarity=0.333  Sum_probs=31.2

Q ss_pred             ceeEEEcCCCCCCCccc----ccccC----CceeeccCCC--C-CCcc---chhhhhhcCC
Q psy7782          33 KGVILYGPPGTGKTLPF----SPALG----YHYYCRGAGS--N-SDKK---DDKDKKKKYE   79 (225)
Q Consensus        33 ~giLl~GppGtGKT~la----~~~~~----~~~~~~~~~~--~-~~~~---~~f~~a~~~~   79 (225)
                      -.++|.||||||||+.+    +...|    -.++.+++++  | .-+|   ..|.+-+-.-
T Consensus        49 P~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~kv~l  109 (333)
T KOG0991|consen   49 PNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQKKVTL  109 (333)
T ss_pred             CceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHHhhccC
Confidence            38999999999999954    55666    3355778888  4 3333   4565544443

>PRK14527 adenylate kinase; Provisional

Probab=96.39  E-value=0.0012  Score=53.71  Aligned_cols=23  Identities=39%  Similarity=0.560  Sum_probs=19.0

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .+.=++++||||+|||++|+..+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La   27 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLA   27 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            44568999999999999997544

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.38  E-value=0.0015  Score=55.01  Aligned_cols=32  Identities=22%  Similarity=0.289  Sum_probs=22.2

Q ss_pred             ceeEEEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      .-|+|.||||+||||+|+..+. ..+..++.|+
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~g~~~is~gd   39 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKENLKHINMGN   39 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence            4499999999999999974332 2344444454

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.38  E-value=0.001  Score=52.37  Aligned_cols=24  Identities=33%  Similarity=0.564  Sum_probs=18.2

Q ss_pred             eEEEcCCCCCCCccccc---ccCCcee
Q psy7782          35 VILYGPPGTGKTLPFSP---ALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~---~~~~~~~   58 (225)
                      ++|.||||||||++|+.   ..+..++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v   27 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFI   27 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEE
Confidence            57899999999999973   3344444

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK06217 hypothetical protein; Validated

Probab=96.37  E-value=0.0012  Score=53.33  Aligned_cols=27  Identities=19%  Similarity=0.166  Sum_probs=22.1

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      -|++.|+||+||||+|+   ...|.+++++
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~   32 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDT   32 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEc
Confidence            48999999999999997   4457777754

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.35  E-value=0.0031  Score=56.16  Aligned_cols=42  Identities=19%  Similarity=0.373  Sum_probs=30.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCC-ceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPP-KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~-~giLl~GppGtGKT~la~   50 (225)
                      .||++.++.|-+++..        +..|.... +=++|+||+|+|||+++.
T Consensus        64 ~G~~~~i~~lV~~fk~--------AA~g~~~~krIl~L~GPvg~GKSsl~~  106 (358)
T PF08298_consen   64 YGMEETIERLVNYFKS--------AAQGLEERKRILLLLGPVGGGKSSLAE  106 (358)
T ss_pred             cCcHHHHHHHHHHHHH--------HHhccCccceEEEEECCCCCCHHHHHH
Confidence            4788888877776655        33344444 445699999999999995

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK08727 hypothetical protein; Validated

Probab=96.34  E-value=0.00079  Score=56.68  Aligned_cols=20  Identities=40%  Similarity=0.436  Sum_probs=17.2

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      ..++||||+|||||+++.+.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~   61 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALAL   61 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            56999999999999998643

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.002  Score=62.70  Aligned_cols=46  Identities=20%  Similarity=0.416  Sum_probs=35.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC----CCceeEEEcCCCCCCCcccccccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK----PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~----~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +|.+++.+.+-+.+..        ++.|+.    |...+||.||.|+|||-+|++.+.
T Consensus       494 iGQd~AV~avs~aIrr--------aRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~  543 (786)
T COG0542         494 IGQDEAVEAVSDAIRR--------ARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE  543 (786)
T ss_pred             eChHHHHHHHHHHHHH--------HhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH
Confidence            5888888888888876        455543    345678899999999999974443

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.33  E-value=0.00085  Score=50.02  Aligned_cols=16  Identities=38%  Similarity=0.530  Sum_probs=15.0

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |+|.|+||+||||+|+
T Consensus         1 I~i~G~~GsGKtTia~   16 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAK   16 (129)
T ss_dssp             EEEEESTTSSHHHHHH
T ss_pred             CEEECCCCCCHHHHHH
Confidence            6899999999999997

...

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.33  E-value=0.0021  Score=61.60  Aligned_cols=38  Identities=21%  Similarity=0.369  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||.+++++.|...+..           | ..+..+|||||+|+|||++|+
T Consensus        20 iGq~~~~~~L~~~i~~-----------~-~l~hayLf~Gp~G~GKtt~A~   57 (614)
T PRK14971         20 VGQEALTTTLKNAIAT-----------N-KLAHAYLFCGPRGVGKTTCAR   57 (614)
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHH
Confidence            5777777777776654           2 355789999999999999874

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=96.30  E-value=0.0024  Score=56.29  Aligned_cols=38  Identities=16%  Similarity=0.384  Sum_probs=31.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.+...+..           | ..+.++|||||+|+||+++|.
T Consensus         7 iGq~~~~~~L~~~i~~-----------~-rl~ha~Lf~G~~G~Gk~~~A~   44 (314)
T PRK07399          7 IGQPLAIELLTAAIKQ-----------N-RIAPAYLFAGPEGVGRKLAAL   44 (314)
T ss_pred             CCHHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHH
Confidence            5888899888888766           2 345699999999999999885

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.30  E-value=0.00087  Score=50.40  Aligned_cols=19  Identities=37%  Similarity=0.763  Sum_probs=14.1

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+.++++||||+|||++++
T Consensus         4 ~~~~~i~G~~G~GKT~~~~   22 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIK   22 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHH
Confidence            3578899999999999986

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.30  E-value=0.0013  Score=50.44  Aligned_cols=27  Identities=33%  Similarity=0.602  Sum_probs=21.8

Q ss_pred             eEEEcCCCCCCCccccc---ccCCceeecc
Q psy7782          35 VILYGPPGTGKTLPFSP---ALGYHYYCRG   61 (225)
Q Consensus        35 iLl~GppGtGKT~la~~---~~~~~~~~~~   61 (225)
                      |.+.|+||||||++|+.   ..|.++++..
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            57899999999999973   3478887665

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.26  E-value=0.00081  Score=54.49  Aligned_cols=31  Identities=23%  Similarity=0.409  Sum_probs=24.2

Q ss_pred             eeEEEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      .+++.||||.||||+|+..+. .++.+++-++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hlstgd   33 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHLDTGD   33 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcHhH
Confidence            478999999999999984433 6677777666

>PRK14526 adenylate kinase; Provisional

Probab=96.22  E-value=0.0011  Score=55.22  Aligned_cols=31  Identities=29%  Similarity=0.581  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      .++|+||||+|||++|+..+. ..+..++.|+
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is~G~   33 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHISTGD   33 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceeecCh
Confidence            378999999999999985542 3444444555

>PLN02200 adenylate kinase family protein

Probab=96.21  E-value=0.0013  Score=55.57  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      .+.-+++.||||+|||++|+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~L   63 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKI   63 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            3456789999999999998733

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.21  E-value=0.0018  Score=51.62  Aligned_cols=25  Identities=32%  Similarity=0.521  Sum_probs=19.5

Q ss_pred             eEEEcCCCCCCCcccc---cccCCceee
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      |-+.|||||||||+|+   ...|.++++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            5688999999999997   445666654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.20  E-value=0.0012  Score=53.38  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=18.7

Q ss_pred             CCCceeEEEcCCCCCCCccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~   51 (225)
                      ..+..+|||||||+|||++|+.
T Consensus        12 ~~~~~~L~~G~~G~gkt~~a~~   33 (188)
T TIGR00678        12 RLAHAYLFAGPEGVGKELLALA   33 (188)
T ss_pred             CCCeEEEEECCCCCCHHHHHHH
Confidence            3457899999999999999863

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.20  E-value=0.0017  Score=51.98  Aligned_cols=18  Identities=28%  Similarity=0.342  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +-++|.||||+|||++|+
T Consensus         3 ~~i~l~G~~gsGKst~a~   20 (175)
T cd00227           3 RIIILNGGSSAGKSSIAR   20 (175)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            458899999999999997

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK04328 hypothetical protein; Provisional

Probab=96.20  E-value=0.002  Score=54.79  Aligned_cols=37  Identities=30%  Similarity=0.344  Sum_probs=27.6

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~   64 (225)
                      |+++..-+|++||||||||+||.      ...|-+.+.++..+
T Consensus        19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee   61 (249)
T PRK04328         19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE   61 (249)
T ss_pred             CCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence            68888889999999999999874      23455555555444

>TIGR01351 adk adenylate kinases

Probab=96.19  E-value=0.0016  Score=53.67  Aligned_cols=18  Identities=39%  Similarity=0.779  Sum_probs=16.1

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      |+++||||+|||++|+..
T Consensus         2 I~i~G~pGsGKsT~a~~L   19 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRI   19 (210)
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999999743

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK14530 adenylate kinase; Provisional

Probab=96.19  E-value=0.0015  Score=54.11  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCCCCcccccc---cCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPA---LGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~---~~~~~~   58 (225)
                      .|+|.||||+||||+|+..   .|.+++
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i   32 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHV   32 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            5899999999999999733   455555

>cd01394 radB RadB

Probab=96.18  E-value=0.0021  Score=53.09  Aligned_cols=23  Identities=43%  Similarity=0.673  Sum_probs=19.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+....-++++||||||||++|.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~   37 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAI   37 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHH
Confidence            56666678999999999999984

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK01184 hypothetical protein; Provisional

Probab=96.17  E-value=0.0016  Score=52.30  Aligned_cols=27  Identities=22%  Similarity=0.210  Sum_probs=20.4

Q ss_pred             eeEEEcCCCCCCCcccc--cccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFS--PALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~--~~~~~~~~~~   60 (225)
                      =|+|.||||+||||+++  ...|.++++.
T Consensus         3 ~i~l~G~~GsGKsT~a~~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSKIAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHcCCcEEEh
Confidence            47899999999999886  4456666543

>PRK14528 adenylate kinase; Provisional

Probab=96.16  E-value=0.0018  Score=52.58  Aligned_cols=20  Identities=40%  Similarity=0.712  Sum_probs=17.1

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      +.++++||||+|||++|+..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~l   21 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKIL   21 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35899999999999999743

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.14  E-value=0.0011  Score=56.38  Aligned_cols=19  Identities=26%  Similarity=0.361  Sum_probs=16.3

Q ss_pred             eeEEEcCCCCCCCcccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~   52 (225)
                      -++|+||||+|||++++..
T Consensus        45 ~~~l~G~~G~GKTtl~~~l   63 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNL   63 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            4789999999999999733

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK13948 shikimate kinase; Provisional

Probab=96.12  E-value=0.0024  Score=51.89  Aligned_cols=32  Identities=34%  Similarity=0.268  Sum_probs=26.4

Q ss_pred             CCCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .+++.|+|.|++|||||++++   ...|.+|++..
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            456899999999999999997   34678888665

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=96.09  E-value=0.0032  Score=50.04  Aligned_cols=37  Identities=24%  Similarity=0.472  Sum_probs=27.4

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |.+++++.|...+..           + ..+..+|||||+|+||+++|.
T Consensus         1 gq~~~~~~L~~~~~~-----------~-~l~ha~L~~G~~g~gk~~~a~   37 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS-----------G-RLPHALLFHGPSGSGKKTLAL   37 (162)
T ss_dssp             S-HHHHHHHHHHHHC-----------T-C--SEEEEECSTTSSHHHHHH
T ss_pred             CcHHHHHHHHHHHHc-----------C-CcceeEEEECCCCCCHHHHHH
Confidence            667777777777665           2 456789999999999999885

...

>PRK02496 adk adenylate kinase; Provisional

Probab=96.09  E-value=0.0019  Score=51.98  Aligned_cols=20  Identities=35%  Similarity=0.592  Sum_probs=16.9

Q ss_pred             eeEEEcCCCCCCCccccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~   53 (225)
                      -++++||||+|||++|+..+
T Consensus         3 ~i~i~G~pGsGKst~a~~la   22 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLA   22 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48899999999999997443

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.08  E-value=0.0014  Score=54.50  Aligned_cols=37  Identities=30%  Similarity=0.349  Sum_probs=27.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------ccc-CCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PAL-GYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~-~~~~~~~~~~~   64 (225)
                      |++...-+|+.||||||||+++.      +.. |-+.+.++..+
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee   58 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEE   58 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecC
Confidence            78888899999999999999984      344 76766666554

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.0019  Score=56.74  Aligned_cols=29  Identities=31%  Similarity=0.523  Sum_probs=23.8

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      ...|||.||.|||||+||+   ...+.||.--
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiA  128 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILNVPFAIA  128 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhCCCeeec
Confidence            4689999999999999996   5667777633

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.07  E-value=0.0024  Score=59.47  Aligned_cols=49  Identities=18%  Similarity=0.182  Sum_probs=32.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------cc-cCCceeeccCCCCCCccchhhhhhcC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PA-LGYHYYCRGAGSNSDKKDDKDKKKKY   78 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~-~~~~~~~~~~~~~~~~~~~f~~a~~~   78 (225)
                      |+++.+.+|+.||||||||+||.      +. .|-+.+.++..+  +..++.+.|+.+
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE--~~~~l~~~~~~~   72 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEE--SPQDIIKNARSF   72 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEec--CHHHHHHHHHHc
Confidence            68889999999999999999985      12 245665555544  233344444443

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.0045  Score=55.72  Aligned_cols=20  Identities=50%  Similarity=0.994  Sum_probs=17.2

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|..+++|||||||||..++
T Consensus        41 ~p~n~~iyG~~GTGKT~~~~   60 (366)
T COG1474          41 RPSNIIIYGPTGTGKTATVK   60 (366)
T ss_pred             CCccEEEECCCCCCHhHHHH
Confidence            44569999999999999885

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.06  E-value=0.0026  Score=51.07  Aligned_cols=30  Identities=23%  Similarity=0.424  Sum_probs=23.7

Q ss_pred             CceeEEEcCCCCCCCccccccc---CCceeecc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL---GYHYYCRG   61 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~---~~~~~~~~   61 (225)
                      .+.|+|.||+|+|||++++..+   +.++++..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D   36 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence            4579999999999999998444   67776554

>PF05729 NACHT: NACHT domain

Probab=96.05  E-value=0.0017  Score=50.40  Aligned_cols=17  Identities=29%  Similarity=0.567  Sum_probs=15.3

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -++++|+||+|||++++
T Consensus         2 ~l~I~G~~G~GKStll~   18 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLR   18 (166)
T ss_pred             EEEEECCCCCChHHHHH
Confidence            47899999999999986

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=96.04  E-value=0.0032  Score=60.58  Aligned_cols=38  Identities=18%  Similarity=0.172  Sum_probs=27.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.++++..+.-....|             ...|+||+||||||||++|++
T Consensus         7 vGq~~~~~al~~~av~~-------------~~g~vli~G~~GtgKs~lar~   44 (633)
T TIGR02442         7 VGQEDLKLALLLNAVDP-------------RIGGVLIRGEKGTAKSTAARG   44 (633)
T ss_pred             cChHHHHHHHHHHhhCC-------------CCCeEEEEcCCCCcHHHHHHH
Confidence            57777776665444331             124899999999999999973

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PLN02674 adenylate kinase

Probab=96.03  E-value=0.0015  Score=55.63  Aligned_cols=34  Identities=35%  Similarity=0.571  Sum_probs=24.6

Q ss_pred             CCceeEEEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      +...++|.||||+||||+|+.++. ..+..++.|+
T Consensus        30 ~~~~i~l~G~PGsGKgT~a~~La~~~~~~his~Gd   64 (244)
T PLN02674         30 PDKRLILIGPPGSGKGTQSPIIKDEYCLCHLATGD   64 (244)
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHcCCcEEchhH
Confidence            346799999999999999974433 4455555555

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.03  E-value=0.0022  Score=53.08  Aligned_cols=18  Identities=44%  Similarity=0.726  Sum_probs=16.1

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      |+++||||+|||++|+..
T Consensus         3 I~v~G~pGsGKsT~a~~l   20 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFI   20 (215)
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999743

>PHA02774 E1; Provisional

Probab=96.02  E-value=0.0016  Score=61.42  Aligned_cols=27  Identities=33%  Similarity=0.698  Sum_probs=21.1

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +++..+.++||||||||||++|.+++.
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~  456 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIK  456 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHH
Confidence            344456899999999999999975543

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.02  E-value=0.0034  Score=60.33  Aligned_cols=20  Identities=35%  Similarity=0.703  Sum_probs=17.6

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      +.++|+||||||||++|++.
T Consensus        51 ~~~l~~G~~G~GKttla~~l   70 (637)
T PRK13765         51 RHVMMIGSPGTGKSMLAKAM   70 (637)
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            47999999999999999743

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.00  E-value=0.0017  Score=52.16  Aligned_cols=29  Identities=24%  Similarity=0.291  Sum_probs=23.9

Q ss_pred             ceeEEEcCCCCCCCccccc---ccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFSP---ALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~---~~~~~~~~~~   61 (225)
                      +.|.|.|++|+||||+.++   ..+.+|++..
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            5789999999999999874   4578888654

>TIGR02012 tigrfam_recA protein RecA

Probab=95.99  E-value=0.0026  Score=56.17  Aligned_cols=33  Identities=21%  Similarity=0.283  Sum_probs=24.2

Q ss_pred             cCChHHHHHc---CCCCCceeEEEcCCCCCCCcccc
Q psy7782          18 LTHPEYYEEM---GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        18 l~~~~~~~~~---g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ...+.+-.-+   |++..+-+++|||||||||+||-
T Consensus        38 TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL   73 (321)
T TIGR02012        38 TGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLAL   73 (321)
T ss_pred             CCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHH
Confidence            3444554444   46777778899999999999974

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK06547 hypothetical protein; Provisional

Probab=95.97  E-value=0.0026  Score=51.20  Aligned_cols=30  Identities=23%  Similarity=0.304  Sum_probs=22.6

Q ss_pred             CCCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      ..+.-|++.||||+|||++|+..   .+.++++
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~   45 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAARTGFQLVH   45 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhCCCeec
Confidence            45678889999999999999743   4555543

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.97  E-value=0.002  Score=57.47  Aligned_cols=28  Identities=39%  Similarity=0.609  Sum_probs=21.9

Q ss_pred             CCCce--eEEEcCCCCCCCcccccccCCce
Q psy7782          30 KPPKG--VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        30 ~~~~g--iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ....|  +-|.||+||||||+.+.++|..-
T Consensus        27 ~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          27 DIKKGEFVTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             eecCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            33455  56899999999999998888443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=95.92  E-value=0.0044  Score=54.90  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=18.2

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+..+|||||+|+|||++|.
T Consensus        26 ~l~ha~Lf~G~~G~gk~~~a~   46 (329)
T PRK08058         26 RLSHAYLFEGAKGTGKKATAL   46 (329)
T ss_pred             CCCceEEEECCCCCCHHHHHH
Confidence            456788999999999999885

>PRK08356 hypothetical protein; Provisional

Probab=95.91  E-value=0.002  Score=52.56  Aligned_cols=31  Identities=16%  Similarity=-0.045  Sum_probs=21.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCceeeccCCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYYCRGAGS   64 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~~~~~~~   64 (225)
                      -++|.||||+|||++|+......+..++.++
T Consensus         7 ~i~~~G~~gsGK~t~a~~l~~~g~~~is~~~   37 (195)
T PRK08356          7 IVGVVGKIAAGKTTVAKFFEEKGFCRVSCSD   37 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHCCCcEEeCCC
Confidence            4789999999999999744333333444443

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.91  E-value=0.0018  Score=53.41  Aligned_cols=31  Identities=26%  Similarity=0.499  Sum_probs=22.5

Q ss_pred             ChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782          20 HPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        20 ~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|..+..-  ..++-++|.||||||||+++..+
T Consensus         3 ~~~~~~~~--~~~~~ivi~GpsG~GK~tl~~~L   33 (206)
T PRK14738          3 NPWLFNKP--AKPLLVVISGPSGVGKDAVLARM   33 (206)
T ss_pred             CccccCCC--CCCeEEEEECcCCCCHHHHHHHH
Confidence            44444432  35677889999999999998644

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.90  E-value=0.0035  Score=52.20  Aligned_cols=23  Identities=43%  Similarity=0.475  Sum_probs=20.9

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..-++++||||||||+++.
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~   38 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCL   38 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHH
Confidence            68888889999999999999885

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.90  E-value=0.0025  Score=49.02  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ....+||+|+|||||+++|++.
T Consensus        20 ~~~pvli~GE~GtGK~~~A~~l   41 (138)
T PF14532_consen   20 SSSPVLITGEPGTGKSLLARAL   41 (138)
T ss_dssp             SSS-EEEECCTTSSHHHHHHCC
T ss_pred             CCCcEEEEcCCCCCHHHHHHHH
Confidence            4578999999999999999743

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=95.90  E-value=0.0057  Score=53.69  Aligned_cols=33  Identities=21%  Similarity=0.222  Sum_probs=27.0

Q ss_pred             CCCCceeEEEcCCCCCCCccccc---ccCCceeecc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRG   61 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~   61 (225)
                      +.+...|.|.|+||||||++++.   ..|.+|+...
T Consensus       130 ~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        130 AARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            56778999999999999999974   4588888543

>PRK09087 hypothetical protein; Validated

Probab=95.86  E-value=0.0019  Score=54.27  Aligned_cols=19  Identities=47%  Similarity=0.532  Sum_probs=16.6

Q ss_pred             ceeEEEcCCCCCCCccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~   51 (225)
                      ..+.||||+|||||+|+++
T Consensus        45 ~~l~l~G~~GsGKThLl~~   63 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASI   63 (226)
T ss_pred             CeEEEECCCCCCHHHHHHH
Confidence            3489999999999999973

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.86  E-value=0.0038  Score=52.24  Aligned_cols=37  Identities=27%  Similarity=0.401  Sum_probs=27.4

Q ss_pred             CCCCCceeEEEcCCCCCCCccccc------ccCCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~   64 (225)
                      |++...-++++||||||||+++.+      ..|-+.+.+...+
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~   63 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTEN   63 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCC
Confidence            788888999999999999999852      2345555554433

>PRK04040 adenylate kinase; Provisional

Probab=95.84  E-value=0.0029  Score=51.62  Aligned_cols=19  Identities=42%  Similarity=0.614  Sum_probs=16.9

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ++-++++|+||||||++++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~   20 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLN   20 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHH
Confidence            4568999999999999997

>PRK13946 shikimate kinase; Provisional

Probab=95.83  E-value=0.0032  Score=50.93  Aligned_cols=31  Identities=26%  Similarity=0.335  Sum_probs=25.1

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .++.|+|.|+||||||++++   ...|.+|++..
T Consensus         9 ~~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946          9 GKRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            35689999999999999997   34588888554

>PRK05973 replicative DNA helicase; Provisional

Probab=95.82  E-value=0.0036  Score=53.03  Aligned_cols=37  Identities=30%  Similarity=0.173  Sum_probs=26.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~   64 (225)
                      |+.+..-+|+.|+||+|||+++-      +..|-+.+.++.-+
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEe  102 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEY  102 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeC
Confidence            67777888999999999999874      23355554444433

>KOG1970|consensus

Probab=95.82  E-value=0.0088  Score=55.94  Aligned_cols=26  Identities=35%  Similarity=0.695  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~   58 (225)
                      +=+||.||+||||||.++   .+.|..+.
T Consensus       111 ~iLLltGPsGcGKSTtvkvLskelg~~~~  139 (634)
T KOG1970|consen  111 RILLLTGPSGCGKSTTVKVLSKELGYQLI  139 (634)
T ss_pred             eEEEEeCCCCCCchhHHHHHHHhhCceee
Confidence            457899999999999875   44554444

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.81  E-value=0.0041  Score=52.33  Aligned_cols=23  Identities=26%  Similarity=0.405  Sum_probs=20.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-+++.||||||||++|.
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~   42 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQ   42 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHH
Confidence            57777888999999999999973

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.80  E-value=0.0032  Score=51.04  Aligned_cols=26  Identities=27%  Similarity=0.546  Sum_probs=21.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.....+++.||+|+|||+++++.++
T Consensus        22 v~~g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          22 VEARKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHh
Confidence            45567899999999999999875554

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.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=95.78  E-value=0.0026  Score=56.52  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=19.7

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      =+.|.||+||||||+.+.+||..
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999888843

>PRK06762 hypothetical protein; Provisional

Probab=95.77  E-value=0.0032  Score=49.70  Aligned_cols=20  Identities=30%  Similarity=0.403  Sum_probs=17.0

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      +.=+++.|+||+|||++|+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~   21 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQ   21 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            34578999999999999973

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.76  E-value=0.0042  Score=51.58  Aligned_cols=23  Identities=39%  Similarity=0.642  Sum_probs=19.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-++++||||+|||++|.
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~   41 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICL   41 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHH
Confidence            66666778999999999999985

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.75  E-value=0.0036  Score=49.63  Aligned_cols=29  Identities=34%  Similarity=0.486  Sum_probs=23.2

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      +.++|.|+||||||++++   ...|.+|++..
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            468999999999999997   34578887643

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.74  E-value=0.004  Score=55.09  Aligned_cols=32  Identities=22%  Similarity=0.273  Sum_probs=22.9

Q ss_pred             CChHHHHHc---CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM---GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~---g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+-.-+   |++..+-+++|||||||||+||-
T Consensus        39 Gi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal   73 (325)
T cd00983          39 GSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLAL   73 (325)
T ss_pred             CCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHH
Confidence            344444443   46666667899999999999984

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.71  E-value=0.005  Score=56.69  Aligned_cols=20  Identities=35%  Similarity=0.634  Sum_probs=17.8

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.-++|+||||+|||+++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaa  113 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAA  113 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHH
Confidence            46789999999999999885

>smart00350 MCM minichromosome maintenance proteins

Probab=95.71  E-value=0.0044  Score=58.12  Aligned_cols=20  Identities=30%  Similarity=0.521  Sum_probs=17.5

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      ..+||+|+||||||++|+..
T Consensus       237 ~~vLL~G~pGtGKs~lar~l  256 (509)
T smart00350      237 INILLLGDPGTAKSQLLKYV  256 (509)
T ss_pred             ceEEEeCCCChhHHHHHHHH
Confidence            36999999999999999744

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.69  E-value=0.0023  Score=59.14  Aligned_cols=21  Identities=33%  Similarity=0.555  Sum_probs=18.0

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+++||||+|||||+|+.++
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai  161 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAA  161 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHH
Confidence            367999999999999998744

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.68  E-value=0.0046  Score=54.09  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=18.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-++++||||||||++|-
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~  113 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICH  113 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHH
Confidence            45666667899999999999884

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.67  E-value=0.0047  Score=51.47  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=19.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...=+.|+||||||||++|.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~   37 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCH   37 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHH
Confidence            56667777899999999999985

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=95.66  E-value=0.0017  Score=54.17  Aligned_cols=21  Identities=38%  Similarity=0.642  Sum_probs=17.5

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ...++||||+|+|||+|..++
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai   54 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAI   54 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHH
Confidence            356899999999999988643

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.66  E-value=0.0038  Score=46.36  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=20.6

Q ss_pred             CCCCceeEEEcCCCCCCCccccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +.+...+.|.||+|||||++++..+
T Consensus        12 i~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          12 VYGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EcCCEEEEEEcCCCCCHHHHHHHhh
Confidence            3455779999999999999998654

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.65  E-value=0.0043  Score=54.83  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=18.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+.-++|.||+|+||||+++..++
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            456678999999999998864443

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.61  E-value=0.0047  Score=45.66  Aligned_cols=18  Identities=44%  Similarity=0.728  Sum_probs=15.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      ++++++||+|+|||+.+.
T Consensus         1 ~~~~i~~~~G~GKT~~~~   18 (144)
T cd00046           1 RDVLLAAPTGSGKTLAAL   18 (144)
T ss_pred             CCEEEECCCCCchhHHHH
Confidence            478999999999999774

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.61  E-value=0.0065  Score=52.48  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=17.6

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..++-++|.||||+|||+++.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~a   90 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIA   90 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHH
Confidence            345778899999999999875

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.60  E-value=0.0029  Score=51.14  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=18.2

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      .-+.|.||+|+||||+++.+++
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~   24 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQ   24 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999985544

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.59  E-value=0.0089  Score=53.00  Aligned_cols=34  Identities=21%  Similarity=0.179  Sum_probs=27.6

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      ....|||+|++||||+++|+++      .+.+|+.++.+.
T Consensus        21 ~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~   60 (329)
T TIGR02974        21 LDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAA   60 (329)
T ss_pred             CCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCC
Confidence            4578999999999999999732      457898887765

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.56  E-value=0.006  Score=53.69  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-++++||||||||++|-
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~  120 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICH  120 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHH
Confidence            46666777899999999999984

>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=95.53  E-value=0.004  Score=42.23  Aligned_cols=18  Identities=22%  Similarity=0.388  Sum_probs=15.3

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      +.+.|+||+|||++++..
T Consensus         2 i~i~G~~gsGKst~~~~l   19 (69)
T cd02019           2 IAITGGSGSGKSTVAKKL   19 (69)
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            568899999999999743

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.53  E-value=0.0041  Score=50.77  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +..-+.|.||+|+|||++++.+++
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~   27 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLE   27 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            456788999999999999975544

>PRK08233 hypothetical protein; Provisional

Probab=95.52  E-value=0.0029  Score=50.34  Aligned_cols=18  Identities=22%  Similarity=0.169  Sum_probs=15.0

Q ss_pred             eeEEEcCCCCCCCccccc
Q psy7782          34 GVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        34 giLl~GppGtGKT~la~~   51 (225)
                      =|.+.|+||+||||+|+.
T Consensus         5 iI~I~G~~GsGKtTla~~   22 (182)
T PRK08233          5 IITIAAVSGGGKTTLTER   22 (182)
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            356789999999999973

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=95.51  E-value=0.0038  Score=53.92  Aligned_cols=21  Identities=43%  Similarity=0.645  Sum_probs=18.7

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ...+.+||.||+|||||++++
T Consensus        31 ~~~~pvLl~G~~GtGKT~li~   51 (272)
T PF12775_consen   31 SNGRPVLLVGPSGTGKTSLIQ   51 (272)
T ss_dssp             HCTEEEEEESSTTSSHHHHHH
T ss_pred             HcCCcEEEECCCCCchhHHHH
Confidence            346899999999999999996

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.49  E-value=0.004  Score=53.93  Aligned_cols=20  Identities=30%  Similarity=0.375  Sum_probs=16.9

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      .=++|.|||||||||+|+..
T Consensus         3 ~liil~G~pGSGKSTla~~L   22 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREF   22 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHH
Confidence            35789999999999999843

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.48  E-value=0.0035  Score=50.06  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=17.6

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      =++|.||+|+|||++++.+++
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999975544

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.48  E-value=0.0073  Score=49.99  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...=+.++||||||||++|.
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~   37 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCL   37 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHH
Confidence            67777778899999999999985

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.44  E-value=0.003  Score=50.46  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=16.7

Q ss_pred             eeEEEcCCCCCCCccccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~   53 (225)
                      -+++.||||+|||++++.++
T Consensus         3 ~~~i~G~sGsGKttl~~~l~   22 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYAR   22 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36899999999999997443

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=95.44  E-value=0.0077  Score=51.47  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=18.9

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...+-+.++|++|+|||++|...
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~   39 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQV   39 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEEcCCcCCcceeeeec
Confidence            45567789999999999999633

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>KOG0990|consensus

Probab=95.41  E-value=0.0076  Score=52.93  Aligned_cols=17  Identities=53%  Similarity=1.069  Sum_probs=15.3

Q ss_pred             ceeEEEcCCCCCCCccc
Q psy7782          33 KGVILYGPPGTGKTLPF   49 (225)
Q Consensus        33 ~giLl~GppGtGKT~la   49 (225)
                      .+.|||||||||||+..
T Consensus        63 Ph~L~YgPPGtGktsti   79 (360)
T KOG0990|consen   63 PHLLFYGPPGTGKTSTI   79 (360)
T ss_pred             CcccccCCCCCCCCCch
Confidence            39999999999999965

>PLN02459 probable adenylate kinase

Probab=95.41  E-value=0.0036  Score=53.69  Aligned_cols=31  Identities=23%  Similarity=0.200  Sum_probs=21.8

Q ss_pred             eeEEEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      -++|.||||+|||++|+..+. ..+..++.|+
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~gd   62 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPHIATGD   62 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeCcH
Confidence            488999999999999974432 3344555554

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.39  E-value=0.0039  Score=52.86  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .-=+-+.||+|||||||.+.++|.
T Consensus        29 GEfvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            334568899999999999877773

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.39  E-value=0.0068  Score=50.34  Aligned_cols=37  Identities=22%  Similarity=0.146  Sum_probs=26.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------cccCCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PALGYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~~~~   64 (225)
                      |+++..-+++.||||+|||++|.      ...|-+.+.++.-+
T Consensus        12 Gi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~   54 (224)
T TIGR03880        12 GFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE   54 (224)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            67778888999999999999874      22355555554444

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK09354 recA recombinase A; Provisional

Probab=95.39  E-value=0.0065  Score=54.27  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=19.1

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++..+-+++|||||||||+||-
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal   78 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLAL   78 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHH
Confidence            46666667899999999999984

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.37  E-value=0.0053  Score=50.69  Aligned_cols=27  Identities=33%  Similarity=0.507  Sum_probs=21.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+.+..-+.+.||+|||||++..-++|
T Consensus        27 ~ia~ge~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          27 TIASGELVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             eecCCCEEEEEcCCCccHHHHHHHHhc
Confidence            345566678899999999999876666

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.34  E-value=0.005  Score=47.57  Aligned_cols=25  Identities=32%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+..-++|.|+.|+|||++++..+.
T Consensus        20 ~~~~~i~l~G~lGaGKTtl~~~l~~   44 (133)
T TIGR00150        20 DFGTVVLLKGDLGAGKTTLVQGLLQ   44 (133)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            4556688999999999999984443

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK10536 hypothetical protein; Provisional

Probab=95.32  E-value=0.004  Score=53.32  Aligned_cols=19  Identities=26%  Similarity=0.321  Sum_probs=16.5

Q ss_pred             ceeEEEcCCCCCCCccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~   51 (225)
                      .-+++.||+|||||++|.+
T Consensus        75 ~lV~i~G~aGTGKT~La~a   93 (262)
T PRK10536         75 QLIFATGEAGCGKTWISAA   93 (262)
T ss_pred             CeEEEECCCCCCHHHHHHH
Confidence            4678999999999999964

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.31  E-value=0.0099  Score=56.00  Aligned_cols=34  Identities=24%  Similarity=0.270  Sum_probs=27.2

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      ....|||+|++|||||++|+++      .+.+|+.++.+.
T Consensus       218 ~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~  257 (534)
T TIGR01817       218 SNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAA  257 (534)
T ss_pred             cCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCC
Confidence            4568999999999999999732      457888877655

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.31  E-value=0.0084  Score=51.97  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=17.8

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      .++-++|.||+|+||||++...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kL  214 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKL  214 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3456889999999999988633

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=95.31  E-value=0.0057  Score=56.07  Aligned_cols=32  Identities=22%  Similarity=0.428  Sum_probs=23.6

Q ss_pred             HHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          22 EYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        22 ~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+..++ ...-+|||+.||||.||||+|++.+.
T Consensus       254 kl~eRL-~eraeGILIAG~PGaGKsTFaqAlAe  285 (604)
T COG1855         254 KLKERL-EERAEGILIAGAPGAGKSTFAQALAE  285 (604)
T ss_pred             HHHHHH-HhhhcceEEecCCCCChhHHHHHHHH
Confidence            344444 24568999999999999999975443

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.30  E-value=0.0066  Score=48.46  Aligned_cols=23  Identities=22%  Similarity=0.172  Sum_probs=19.0

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+.-++|.|+||+|||++|+..
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l   27 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKAL   27 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHH
Confidence            35567889999999999999743

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.26  E-value=0.0097  Score=52.44  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=18.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-++++||||||||.+|.
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~l  114 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSH  114 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHH
Confidence            45655666899999999999984

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.25  E-value=0.0072  Score=50.20  Aligned_cols=17  Identities=47%  Similarity=0.569  Sum_probs=15.3

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =++|.|+||+|||++|+
T Consensus         3 LiIlTGyPgsGKTtfak   19 (261)
T COG4088           3 LIILTGYPGSGKTTFAK   19 (261)
T ss_pred             eEEEecCCCCCchHHHH
Confidence            37899999999999996

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=95.25  E-value=0.0054  Score=58.22  Aligned_cols=32  Identities=22%  Similarity=0.499  Sum_probs=27.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC-Cceee
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG-YHYYC   59 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~-~~~~~   59 (225)
                      .+++...+|+-||+|||||++.++++| +|+.+
T Consensus       415 ~v~~G~~llI~G~SG~GKTsLlRaiaGLWP~g~  447 (604)
T COG4178         415 EVRPGERLLITGESGAGKTSLLRALAGLWPWGS  447 (604)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHhccCccCC
Confidence            456778899999999999999999999 56654

>PRK13808 adenylate kinase; Provisional

Probab=95.24  E-value=0.0039  Score=55.29  Aligned_cols=18  Identities=44%  Similarity=0.778  Sum_probs=16.0

Q ss_pred             eeEEEcCCCCCCCccccc
Q psy7782          34 GVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        34 giLl~GppGtGKT~la~~   51 (225)
                      -|+|+||||+|||+++..
T Consensus         2 rIiv~GpPGSGK~T~a~~   19 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQR   19 (333)
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            389999999999999873

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.23  E-value=0.0026  Score=50.17  Aligned_cols=24  Identities=33%  Similarity=0.577  Sum_probs=15.7

Q ss_pred             eEEEcCCCCCCCccccccc--CCcee
Q psy7782          35 VILYGPPGTGKTLPFSPAL--GYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~--~~~~~   58 (225)
                      |.|.|+||||||||+++.+  |.+++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAARGYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHHT-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHcCCeEE
Confidence            6899999999999997332  54443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=95.22  E-value=0.015  Score=57.72  Aligned_cols=39  Identities=26%  Similarity=0.355  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         4 ~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ++..+.|..++.--+.        |-.+...+++|||||||||++++
T Consensus       761 EeEIeeLasfL~paIk--------gsgpnnvLYIyG~PGTGKTATVK  799 (1164)
T PTZ00112        761 EKEIKEVHGFLESGIK--------QSGSNQILYISGMPGTGKTATVY  799 (1164)
T ss_pred             HHHHHHHHHHHHHHHh--------cCCCCceEEEECCCCCCHHHHHH
Confidence            4555555555544221        21232334699999999999885

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=95.21  E-value=0.0051  Score=49.29  Aligned_cols=17  Identities=41%  Similarity=0.839  Sum_probs=14.4

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      .++|.|+||+||||+++
T Consensus         1 ~i~iTG~pG~GKTTll~   17 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLK   17 (168)
T ss_dssp             EEEEES-TTSSHHHHHH
T ss_pred             CEEEECcCCCCHHHHHH
Confidence            37999999999999985

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR00376 DNA helicase, putative

Probab=95.21  E-value=0.0062  Score=58.69  Aligned_cols=18  Identities=44%  Similarity=0.772  Sum_probs=15.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-+|++||||||||+++.
T Consensus       174 ~~~lI~GpPGTGKT~t~~  191 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLV  191 (637)
T ss_pred             CeEEEEcCCCCCHHHHHH
Confidence            467899999999999764

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.20  E-value=0.0079  Score=54.25  Aligned_cols=21  Identities=33%  Similarity=0.450  Sum_probs=17.6

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ....-++|.||+|+||||++.
T Consensus       135 ~~g~ii~lvGptGvGKTTtia  155 (374)
T PRK14722        135 ERGGVFALMGPTGVGKTTTTA  155 (374)
T ss_pred             cCCcEEEEECCCCCCHHHHHH
Confidence            345678899999999999886

>TIGR00235 udk uridine kinase

Probab=95.18  E-value=0.0038  Score=51.34  Aligned_cols=20  Identities=25%  Similarity=0.258  Sum_probs=16.5

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +.+.||+|+||||+++++++
T Consensus         9 i~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         9 IGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45899999999999985543

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.18  E-value=0.012  Score=52.06  Aligned_cols=34  Identities=26%  Similarity=0.277  Sum_probs=27.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      ....|||+|++||||+++|+++      .+.+|+.++.+.
T Consensus        28 ~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~   67 (326)
T PRK11608         28 LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAA   67 (326)
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCC
Confidence            4568999999999999999732      457888777665

>PF13173 AAA_14: AAA domain

Probab=95.18  E-value=0.0068  Score=45.97  Aligned_cols=21  Identities=43%  Similarity=0.572  Sum_probs=17.6

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      +-++|+||.|||||++++..+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~   23 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLA   23 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            467899999999999997443

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.13  E-value=0.014  Score=47.81  Aligned_cols=18  Identities=44%  Similarity=0.708  Sum_probs=15.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +-.++.||||||||++.+
T Consensus        19 ~~~~l~G~aGtGKT~~l~   36 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLK   36 (196)
T ss_dssp             SEEEEEESTTSTHHHHHH
T ss_pred             eEEEEEECCCCCHHHHHH
Confidence            467889999999999875

>PRK14529 adenylate kinase; Provisional

Probab=95.12  E-value=0.006  Score=51.19  Aligned_cols=17  Identities=29%  Similarity=0.759  Sum_probs=15.5

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      .|+|.||||+||||+|+
T Consensus         2 ~I~l~G~PGsGK~T~a~   18 (223)
T PRK14529          2 NILIFGPNGSGKGTQGA   18 (223)
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            38899999999999996

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.12  E-value=0.0067  Score=47.41  Aligned_cols=22  Identities=41%  Similarity=0.653  Sum_probs=18.9

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      +-++|.||.|||||+|+++..+
T Consensus         2 krimliG~~g~GKTTL~q~L~~   23 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNG   23 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcC
Confidence            4689999999999999986655

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.12  E-value=0.0044  Score=49.97  Aligned_cols=22  Identities=36%  Similarity=0.443  Sum_probs=18.4

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      .-+.+.||+|||||++++..++
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999986555

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.12  E-value=0.011  Score=52.89  Aligned_cols=23  Identities=26%  Similarity=0.199  Sum_probs=18.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...=..++||||||||.||-
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~l  144 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAH  144 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHH
Confidence            34555555799999999999985

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.11  E-value=0.0048  Score=52.23  Aligned_cols=17  Identities=41%  Similarity=0.602  Sum_probs=15.4

Q ss_pred             eEEEcCCCCCCCccccc
Q psy7782          35 VILYGPPGTGKTLPFSP   51 (225)
Q Consensus        35 iLl~GppGtGKT~la~~   51 (225)
                      |+|.|+||+|||++|+.
T Consensus         2 Ivl~G~pGSGKST~a~~   18 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKE   18 (249)
T ss_pred             EEEEcCCCCCHHHHHHH
Confidence            68999999999999974

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=95.08  E-value=0.0055  Score=54.35  Aligned_cols=21  Identities=33%  Similarity=0.608  Sum_probs=18.3

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.++||+||+|+|||++|.
T Consensus        20 r~~ha~Lf~G~~G~GK~~~A~   40 (328)
T PRK05707         20 RHPHAYLLHGPAGIGKRALAE   40 (328)
T ss_pred             CcceeeeeECCCCCCHHHHHH
Confidence            456799999999999999884

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.08  E-value=0.0055  Score=49.45  Aligned_cols=27  Identities=19%  Similarity=0.388  Sum_probs=22.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+.+.--+++.||+||||++|.+.++.
T Consensus        25 ~v~~Ge~iaitGPSG~GKStllk~va~   51 (223)
T COG4619          25 SVRAGEFIAITGPSGCGKSTLLKIVAS   51 (223)
T ss_pred             eecCCceEEEeCCCCccHHHHHHHHHh
Confidence            355677899999999999999986654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.06  E-value=0.017  Score=52.86  Aligned_cols=22  Identities=36%  Similarity=0.564  Sum_probs=17.7

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      +.-++|.||+|+||||++...+
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA  244 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLA  244 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4458899999999999986443

>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=95.06  E-value=0.0044  Score=47.06  Aligned_cols=28  Identities=36%  Similarity=0.572  Sum_probs=23.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCCc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      +.+..-+.+.||+|+|||+|.+.++|..
T Consensus         8 i~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    8 IKPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEEccCCCccccceeeecccc
Confidence            3455677899999999999999888843

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 ....

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.06  E-value=0.0044  Score=50.43  Aligned_cols=20  Identities=25%  Similarity=0.343  Sum_probs=16.2

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +.+.||+|+||||+++..++
T Consensus         2 igi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            46889999999999975443

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.03  E-value=0.006  Score=54.03  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=18.7

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      +.+.++||+||+|+|||++|.
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~   39 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFAR   39 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHH
Confidence            567799999999999999885

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.03  E-value=0.0049  Score=50.55  Aligned_cols=18  Identities=33%  Similarity=0.696  Sum_probs=15.6

Q ss_pred             eeEEEcCCCCCCCccccc
Q psy7782          34 GVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        34 giLl~GppGtGKT~la~~   51 (225)
                      -+++.||+|+||||++++
T Consensus         3 lilI~GptGSGKTTll~~   20 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAA   20 (198)
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            468999999999999864

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=94.98  E-value=0.0056  Score=58.38  Aligned_cols=19  Identities=32%  Similarity=0.607  Sum_probs=16.7

Q ss_pred             ceeEEEcCCCCCCCccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~   51 (225)
                      ..++|||++|||||+|+.+
T Consensus       315 NpL~LyG~sGsGKTHLL~A  333 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHA  333 (617)
T ss_pred             CcEEEECCCCCCHHHHHHH
Confidence            4699999999999999863

>PRK13764 ATPase; Provisional

Probab=94.97  E-value=0.0059  Score=58.21  Aligned_cols=24  Identities=25%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             CCCceeEEEcCCCCCCCccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ...+++|+.||||+||||++++++
T Consensus       255 ~~~~~ILIsG~TGSGKTTll~AL~  278 (602)
T PRK13764        255 ERAEGILIAGAPGAGKSTFAQALA  278 (602)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHH
Confidence            446899999999999999986433

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=94.96  E-value=0.0081  Score=47.28  Aligned_cols=19  Identities=37%  Similarity=0.569  Sum_probs=17.6

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||+|.|||++|.
T Consensus        14 g~gvLi~G~sG~GKStlal   32 (149)
T cd01918          14 GIGVLITGPSGIGKSELAL   32 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            4799999999999999986

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.95  E-value=0.012  Score=49.96  Aligned_cols=55  Identities=25%  Similarity=0.418  Sum_probs=38.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      +|++.+++.|.+....       |.. | .|-..+||+|.-|||||++++++      .|..++.+...+
T Consensus        63 ~Gvd~qk~~L~~NT~~-------F~~-G-~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~d  123 (287)
T COG2607          63 VGVDRQKEALVRNTEQ-------FAE-G-LPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKED  123 (287)
T ss_pred             hCchHHHHHHHHHHHH-------HHc-C-CcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHH
Confidence            5888888888766555       333 4 46689999999999999999743      334555554444

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=94.94  E-value=0.016  Score=56.33  Aligned_cols=34  Identities=21%  Similarity=0.239  Sum_probs=26.1

Q ss_pred             CCceeEEEcCCCCCCCccccc------ccCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~   64 (225)
                      ....||++|++|||||++|++      ..+.+|+.++...
T Consensus       398 ~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~  437 (686)
T PRK15429        398 SDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAA  437 (686)
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEeccc
Confidence            456899999999999999973      2456787766543

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=94.94  E-value=0.0092  Score=48.01  Aligned_cols=25  Identities=28%  Similarity=0.235  Sum_probs=19.3

Q ss_pred             eEEEcCCCCCCCcccccc--cCCceee
Q psy7782          35 VILYGPPGTGKTLPFSPA--LGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~--~~~~~~~   59 (225)
                      |.++|+||+|||++++..  .|.++++
T Consensus         2 i~itG~~gsGKst~~~~l~~~g~~~i~   28 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKELGIPVID   28 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCEEe
Confidence            679999999999999733  5655554

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.94  E-value=0.0084  Score=47.17  Aligned_cols=26  Identities=31%  Similarity=0.517  Sum_probs=20.7

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      |.++|+||+|||++|+..   .|.++++.
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            689999999999999733   56776653

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PRK04182 cytidylate kinase; Provisional

Probab=94.93  E-value=0.0085  Score=47.48  Aligned_cols=25  Identities=36%  Similarity=0.594  Sum_probs=20.9

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceee
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      |++.|+||||||++|+..   .|.++++
T Consensus         3 I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          3 ITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            789999999999999743   4777776

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.92  E-value=0.005  Score=48.18  Aligned_cols=20  Identities=25%  Similarity=0.278  Sum_probs=16.5

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +++.|+||+|||++|+..++
T Consensus         2 i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67999999999999974433

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.92  E-value=0.0063  Score=51.47  Aligned_cols=25  Identities=20%  Similarity=0.246  Sum_probs=19.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+=+.||+||||||+++..+|.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            3344458899999999999988873

>cd04159 Arl10_like Arl10-like subfamily

Probab=94.90  E-value=0.0078  Score=45.78  Aligned_cols=24  Identities=25%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             eEEEcCCCCCCCcccccccCCcee
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      +.|.||+|+|||+|.++..+.++.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~   25 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFS   25 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCC
Confidence            678999999999999988776553

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.

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=94.90  E-value=0.005  Score=47.93  Aligned_cols=28  Identities=29%  Similarity=0.507  Sum_probs=19.1

Q ss_pred             EEcCCCCCCCcccccccC-CceeeccCCC
Q psy7782          37 LYGPPGTGKTLPFSPALG-YHYYCRGAGS   64 (225)
Q Consensus        37 l~GppGtGKT~la~~~~~-~~~~~~~~~~   64 (225)
                      +.||||+|||++|+.++. ..+..++.++
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is~~~   29 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHISVGD   29 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEEHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceechHH
Confidence            579999999999974333 3444555444

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=94.89  E-value=0.011  Score=55.07  Aligned_cols=23  Identities=39%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..-+|+.||||+|||+|+.
T Consensus       259 G~~~gs~~li~G~~G~GKt~l~~  281 (484)
T TIGR02655       259 GFFKDSIILATGATGTGKTLLVS  281 (484)
T ss_pred             CccCCcEEEEECCCCCCHHHHHH
Confidence            57788889999999999999984

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.89  E-value=0.012  Score=53.33  Aligned_cols=44  Identities=18%  Similarity=0.205  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         4 ~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +++...+.+.+..-+..+..+   .+..++-++|.||+|+|||+++.
T Consensus       181 ~~v~~~~~~~L~~~l~~~~~~---~~~~~~ii~lvGptGvGKTTt~a  224 (407)
T PRK12726        181 DDITDWFVPYLSGKLAVEDSF---DLSNHRIISLIGQTGVGKTTTLV  224 (407)
T ss_pred             HHHHHHHHHHhcCcEeeCCCc---eecCCeEEEEECCCCCCHHHHHH
Confidence            444555555555433333222   23456778899999999999875

>PLN03210 Resistant to P

Probab=94.86  E-value=0.013  Score=60.04  Aligned_cols=41  Identities=20%  Similarity=0.306  Sum_probs=28.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|+++..++|...+..           +....+-+-++||+|+||||+|+++
T Consensus       187 vG~~~~l~~l~~lL~l-----------~~~~~~vvgI~G~gGiGKTTLA~~l  227 (1153)
T PLN03210        187 VGIEDHIAKMSSLLHL-----------ESEEVRMVGIWGSSGIGKTTIARAL  227 (1153)
T ss_pred             cchHHHHHHHHHHHcc-----------ccCceEEEEEEcCCCCchHHHHHHH
Confidence            4666666666655532           2233456779999999999999754

syringae 6; Provisional

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.85  E-value=0.0055  Score=50.36  Aligned_cols=23  Identities=30%  Similarity=0.313  Sum_probs=18.3

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .+.-|.+.|||||||||+++.++
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~   27 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIY   27 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34567899999999999997443

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=94.79  E-value=0.013  Score=47.88  Aligned_cols=20  Identities=45%  Similarity=0.953  Sum_probs=17.5

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      +...+++|||.|+|||++++
T Consensus        19 ~~~~~~l~G~rg~GKTsLl~   38 (234)
T PF01637_consen   19 PSQHILLYGPRGSGKTSLLK   38 (234)
T ss_dssp             -SSEEEEEESTTSSHHHHHH
T ss_pred             cCcEEEEEcCCcCCHHHHHH
Confidence            45789999999999999986

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=94.76  E-value=0.0058  Score=50.21  Aligned_cols=19  Identities=47%  Similarity=0.821  Sum_probs=16.1

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      |+=++|.||+|+||||.+.
T Consensus         1 p~vi~lvGptGvGKTTt~a   19 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIA   19 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHH
Confidence            4568999999999999763

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=94.76  E-value=0.019  Score=53.79  Aligned_cols=34  Identities=18%  Similarity=0.228  Sum_probs=26.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      ....|||+|++|||||++|+++      .+.+|+.++.+.
T Consensus       209 ~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~  248 (509)
T PRK05022        209 SDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAA  248 (509)
T ss_pred             CCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEccc
Confidence            4578999999999999999732      456888776554

>PRK10867 signal recognition particle protein; Provisional

Probab=94.75  E-value=0.013  Score=53.81  Aligned_cols=20  Identities=35%  Similarity=0.664  Sum_probs=17.2

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      +|.-+++.||||+||||++.
T Consensus        99 ~p~vI~~vG~~GsGKTTtaa  118 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAG  118 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHH
Confidence            46778999999999999764

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.75  E-value=0.013  Score=48.99  Aligned_cols=37  Identities=22%  Similarity=0.215  Sum_probs=27.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------ccc-CCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PAL-GYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~-~~~~~~~~~~~   64 (225)
                      |+.+..-+++.||||+|||+++.      +.. |.+++.++.-.
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~   52 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEM   52 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCC
Confidence            67777788999999999999884      222 66666555444

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=94.75  E-value=0.0082  Score=49.72  Aligned_cols=16  Identities=31%  Similarity=0.731  Sum_probs=14.4

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      ++++|+||||||++++
T Consensus         1 ~vv~G~pGsGKSt~i~   16 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIK   16 (234)
T ss_pred             CEEEcCCCCCHHHHHH
Confidence            4789999999999886

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=94.70  E-value=0.013  Score=55.26  Aligned_cols=34  Identities=24%  Similarity=0.403  Sum_probs=26.9

Q ss_pred             CCceeEEEcCCCCCCCcccccc--------------cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA--------------LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~--------------~~~~~~~~~~~~   64 (225)
                      ....||++|++||||+++|+++              .+.||+.++.+.
T Consensus       241 s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaa  288 (538)
T PRK15424        241 SSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGA  288 (538)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeeccc
Confidence            4568999999999999999732              346888887664

>PRK06696 uridine kinase; Validated

Probab=94.70  E-value=0.02  Score=47.72  Aligned_cols=20  Identities=30%  Similarity=0.297  Sum_probs=17.1

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .+.=|.+.|+||+||||+|+
T Consensus        21 ~~~iI~I~G~sgsGKSTlA~   40 (223)
T PRK06696         21 RPLRVAIDGITASGKTTFAD   40 (223)
T ss_pred             CceEEEEECCCCCCHHHHHH
Confidence            34567799999999999996

>TIGR00368 Mg chelatase-related protein

Probab=94.69  E-value=0.01  Score=55.53  Aligned_cols=23  Identities=43%  Similarity=0.849  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ...++|+||||||||++++.+.+
T Consensus       211 g~~vlliG~pGsGKTtlar~l~~  233 (499)
T TIGR00368       211 GHNLLLFGPPGSGKTMLASRLQG  233 (499)
T ss_pred             CCEEEEEecCCCCHHHHHHHHhc
Confidence            35699999999999999986554

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.67  E-value=0.0079  Score=47.79  Aligned_cols=16  Identities=38%  Similarity=0.613  Sum_probs=14.4

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      +++.||||+|||++++
T Consensus         3 ~~~~G~~G~GKTt~~~   18 (173)
T cd03115           3 ILLVGLQGVGKTTTAA   18 (173)
T ss_pred             EEEECCCCCCHHHHHH
Confidence            6789999999999975

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=94.65  E-value=0.013  Score=48.46  Aligned_cols=18  Identities=50%  Similarity=0.650  Sum_probs=13.7

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=+.+.||+|||||++|-
T Consensus        20 ~~v~~~G~AGTGKT~LA~   37 (205)
T PF02562_consen   20 DLVIVNGPAGTGKTFLAL   37 (205)
T ss_dssp             SEEEEE--TTSSTTHHHH
T ss_pred             CeEEEECCCCCcHHHHHH
Confidence            367899999999999984

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=94.63  E-value=0.017  Score=54.13  Aligned_cols=38  Identities=18%  Similarity=0.350  Sum_probs=30.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+.+...|...+..        .    +...+.||.||-|||||++|+
T Consensus        19 vGQe~v~~~L~nal~~--------~----ri~hAYlfsG~RGvGKTt~Ar   56 (515)
T COG2812          19 VGQEHVVKTLSNALEN--------G----RIAHAYLFSGPRGVGKTTIAR   56 (515)
T ss_pred             cccHHHHHHHHHHHHh--------C----cchhhhhhcCCCCcCchhHHH
Confidence            5777788877777766        1    334699999999999999886

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=94.62  E-value=0.014  Score=39.08  Aligned_cols=17  Identities=29%  Similarity=0.628  Sum_probs=15.3

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -.+|+||.|+|||++..
T Consensus        25 ~tli~G~nGsGKSTllD   41 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLD   41 (62)
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            38999999999999874

>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=94.61  E-value=0.0083  Score=49.47  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        27 i~~G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          27 IEKGEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EcCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            345556779999999999999988885

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.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=94.60  E-value=0.011  Score=50.37  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=19.1

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ...-++++||+|||||++++.++
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~   37 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIA   37 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999997444

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=94.59  E-value=0.018  Score=52.30  Aligned_cols=34  Identities=21%  Similarity=0.244  Sum_probs=28.3

Q ss_pred             CCceeEEEcCCCCCCCcccc------cc-cCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS------PA-LGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~------~~-~~~~~~~~~~~~   64 (225)
                      ....+|++|++||||+++|+      +- .+.||+.++.+.
T Consensus       100 ~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~  140 (403)
T COG1221         100 SGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAA  140 (403)
T ss_pred             CCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHH
Confidence            45789999999999999995      22 678999888766

>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=94.58  E-value=0.0058  Score=45.01  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=19.0

Q ss_pred             eEEEcCCCCCCCcccccccCCcee
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      |++.|++|+|||+|.++.++.++.
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            788999999999999876665554

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=94.58  E-value=0.0083  Score=47.82  Aligned_cols=23  Identities=26%  Similarity=0.179  Sum_probs=18.4

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..-+.|.|+||+|||++|+..++
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~   26 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAE   26 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999974443

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.58  E-value=0.014  Score=53.90  Aligned_cols=36  Identities=28%  Similarity=0.402  Sum_probs=25.7

Q ss_pred             CCCCCceeEEEcCCCCCCCccccc------ccCCceeeccCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAG   63 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~   63 (225)
                      |+.+..-+|++||||+|||+++..      ..+.+++.++.-
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~E  117 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGE  117 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcc
Confidence            577777889999999999998852      224555555443

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=94.57  E-value=0.013  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...+++|+.||+|+|||+++++.
T Consensus       130 ~~~~~ilI~G~tGSGKTTll~al  152 (299)
T TIGR02782       130 LARKNILVVGGTGSGKTTLANAL  152 (299)
T ss_pred             HcCCeEEEECCCCCCHHHHHHHH
Confidence            45679999999999999998643

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>KOG0060|consensus

Probab=94.52  E-value=0.013  Score=55.13  Aligned_cols=26  Identities=27%  Similarity=0.492  Sum_probs=22.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++....+|+.||+|||||+|.+..+|
T Consensus       458 V~~g~~LLItG~sG~GKtSLlRvlgg  483 (659)
T KOG0060|consen  458 VPSGQNLLITGPSGCGKTSLLRVLGG  483 (659)
T ss_pred             ecCCCeEEEECCCCCchhHHHHHHhc
Confidence            45567899999999999999997777

>KOG2680|consensus

Probab=94.51  E-value=0.017  Score=50.65  Aligned_cols=37  Identities=24%  Similarity=0.364  Sum_probs=27.2

Q ss_pred             CCCCCceeEEEcCCCCCCCccccccc---C--CceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPAL---G--YHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~---~--~~~~~~~~~~   64 (225)
                      |.-..+.+|+-|+||||||.+|-.++   |  .||.++.+++
T Consensus        62 gkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSE  103 (454)
T KOG2680|consen   62 GKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSE  103 (454)
T ss_pred             CcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeeecce
Confidence            44467899999999999999984222   2  5666666666

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

Probab=94.50  E-value=0.01  Score=43.79  Aligned_cols=31  Identities=19%  Similarity=0.220  Sum_probs=23.7

Q ss_pred             eEEEcCCCCCCCcccccccCCceeeccCCCC
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYYCRGAGSN   65 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~~~~~~~~   65 (225)
                      |++.|+||+|||+|..+.++......+...+
T Consensus         2 V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~   32 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGKKLAKVSNIPG   32 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSTSSEESSSTT
T ss_pred             EEEECCCCCCHHHHHHHHhcccccccccccc
Confidence            6899999999999999888865444444433

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 ....

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=94.50  E-value=0.016  Score=54.32  Aligned_cols=37  Identities=22%  Similarity=0.126  Sum_probs=27.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc------ccc-CCceeeccCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS------PAL-GYHYYCRGAGS   64 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~------~~~-~~~~~~~~~~~   64 (225)
                      |+++..-+|++|+||+|||+|+.      +.. |-+.+.++.-+
T Consensus        27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee   70 (509)
T PRK09302         27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE   70 (509)
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC
Confidence            67888889999999999999985      222 44555555444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.50  E-value=0.017  Score=52.35  Aligned_cols=20  Identities=40%  Similarity=0.655  Sum_probs=17.2

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .++-++|+||+|+||||.++
T Consensus       173 ~~~vi~lvGptGvGKTTT~a  192 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIA  192 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            35678999999999999875

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.50  E-value=0.012  Score=49.50  Aligned_cols=43  Identities=23%  Similarity=0.390  Sum_probs=33.0

Q ss_pred             HHHHHcCCCCCcee--EEEcCCCCCCCcccccccCCceeeccCCC
Q psy7782          22 EYYEEMGIKPPKGV--ILYGPPGTGKTLPFSPALGYHYYCRGAGS   64 (225)
Q Consensus        22 ~~~~~~g~~~~~gi--Ll~GppGtGKT~la~~~~~~~~~~~~~~~   64 (225)
                      +.++...+....|=  -+.||.|+|||||+...+|.+-|.+..|+
T Consensus        18 eILkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~   62 (251)
T COG0396          18 EILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGE   62 (251)
T ss_pred             hhhcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCceEecce
Confidence            44444444433333  47899999999999999999999999888

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.49  E-value=0.011  Score=52.59  Aligned_cols=30  Identities=23%  Similarity=0.542  Sum_probs=20.9

Q ss_pred             HHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782          22 EYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        22 ~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +.+.++-..+..-+|+.||+|+||||+.++
T Consensus       112 ~~l~~~~~~~~g~ili~G~tGSGKTT~l~a  141 (343)
T TIGR01420       112 PVLRELAERPRGLILVTGPTGSGKSTTLAS  141 (343)
T ss_pred             HHHHHHHhhcCcEEEEECCCCCCHHHHHHH
Confidence            344444333445668999999999998864

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=94.48  E-value=0.011  Score=49.31  Aligned_cols=27  Identities=22%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (230)
T TIGR03410        23 VPKGEVTCVLGRNGVGKTTLLKTLMGL   49 (230)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            445566889999999999999988874

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd01878 HflX HflX subfamily

Probab=94.47  E-value=0.03  Score=45.42  Aligned_cols=27  Identities=26%  Similarity=0.265  Sum_probs=22.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCce
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      +..-+++.|+||+|||+|....++..+
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~~   66 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGADV   66 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcchh
Confidence            345789999999999999987777653

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=94.47  E-value=0.011  Score=48.20  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=18.1

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      .++=++|.||||+|||++++.+
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l   24 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQAL   24 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3566889999999999999633

>PRK06851 hypothetical protein; Provisional

Probab=94.45  E-value=0.14  Score=46.21  Aligned_cols=20  Identities=40%  Similarity=0.579  Sum_probs=17.3

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ..+-++|.||||||||++.+
T Consensus        29 ~~~~~il~G~pGtGKStl~~   48 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMK   48 (367)
T ss_pred             cceEEEEECCCCCCHHHHHH
Confidence            34568999999999999986

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.45  E-value=0.0092  Score=46.04  Aligned_cols=20  Identities=35%  Similarity=0.674  Sum_probs=16.8

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +.|.||+|+|||++++.++.
T Consensus         2 i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            57889999999999985554

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.45  E-value=0.022  Score=50.32  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=19.5

Q ss_pred             CCCCCceeEEEcCCCCCCCccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      |+.+..=+.++||||+|||+++..
T Consensus        92 Gi~~g~i~~i~G~~g~GKT~l~~~  115 (316)
T TIGR02239        92 GIETGSITEIFGEFRTGKTQLCHT  115 (316)
T ss_pred             CCCCCeEEEEECCCCCCcCHHHHH
Confidence            456666678999999999999963

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PTZ00035 Rad51 protein; Provisional

Probab=94.44  E-value=0.02  Score=51.04  Aligned_cols=23  Identities=35%  Similarity=0.342  Sum_probs=18.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-+.++||||||||+++.
T Consensus       114 Gi~~G~iteI~G~~GsGKT~l~~  136 (337)
T PTZ00035        114 GIETGSITELFGEFRTGKTQLCH  136 (337)
T ss_pred             CCCCCeEEEEECCCCCchhHHHH
Confidence            35555556799999999999986

>cd04155 Arl3 Arl3 subfamily

Probab=94.44  E-value=0.012  Score=46.24  Aligned_cols=26  Identities=15%  Similarity=0.213  Sum_probs=21.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..-+++.||+|+|||+|.....+..+
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~~~   39 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASEDI   39 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcCCC
Confidence            35689999999999999987777544

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=94.39  E-value=0.028  Score=52.99  Aligned_cols=34  Identities=24%  Similarity=0.441  Sum_probs=27.3

Q ss_pred             CCceeEEEcCCCCCCCccccc------ccCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~   64 (225)
                      ....||++|++||||+++|++      -.+.||+.++.+.
T Consensus       234 ~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~  273 (526)
T TIGR02329       234 SDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGA  273 (526)
T ss_pred             CCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEecccc
Confidence            457899999999999999973      2457888887664

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>cd04163 Era Era subfamily

Probab=94.39  E-value=0.016  Score=44.28  Aligned_cols=27  Identities=22%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             eeEEEcCCCCCCCcccccccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~~~   60 (225)
                      -+.+.|+||+|||+++.+.++.++...
T Consensus         5 ~i~~~G~~g~GKttl~~~l~~~~~~~~   31 (168)
T cd04163           5 FVAIVGRPNVGKSTLLNALVGQKISIV   31 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceEec
Confidence            478999999999999998877665433

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.

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=94.39  E-value=0.015  Score=47.52  Aligned_cols=21  Identities=33%  Similarity=0.618  Sum_probs=17.1

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..|.-+++-||||+|||+++.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~   33 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLAR   33 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHH
Confidence            467899999999999999986

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK14974 cell division protein FtsY; Provisional

Probab=94.38  E-value=0.024  Score=50.46  Aligned_cols=20  Identities=35%  Similarity=0.589  Sum_probs=17.0

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .+.-++|.||||+||||+++
T Consensus       139 ~~~vi~~~G~~GvGKTTtia  158 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIA  158 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHH
Confidence            35678999999999999765

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=94.38  E-value=0.023  Score=49.63  Aligned_cols=43  Identities=19%  Similarity=0.311  Sum_probs=28.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ||+....+.+...-.+ +.+|..      ....++||+|++|.|||++++
T Consensus        37 IgY~~A~~~L~~L~~L-l~~P~~------~Rmp~lLivG~snnGKT~Ii~   79 (302)
T PF05621_consen   37 IGYPRAKEALDRLEEL-LEYPKR------HRMPNLLIVGDSNNGKTMIIE   79 (302)
T ss_pred             ecCHHHHHHHHHHHHH-HhCCcc------cCCCceEEecCCCCcHHHHHH
Confidence            4666666665555554 444432      223479999999999999985

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=94.37  E-value=0.011  Score=47.24  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=22.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.+.||+|+|||+|++.++|.
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          25 LKQGEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            455667789999999999999988885

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.37  E-value=0.0089  Score=49.19  Aligned_cols=23  Identities=26%  Similarity=0.163  Sum_probs=18.3

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.=+++.|+||+|||++|+..+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~   25 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIAR   25 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999974433

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=94.37  E-value=0.011  Score=49.49  Aligned_cols=27  Identities=30%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        25 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        25 INPGEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344556779999999999999988884

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=94.35  E-value=0.012  Score=50.84  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=20.2

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..++++.||||+||||+.+..++
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~  133 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLAR  133 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhC
Confidence            36899999999999999986666

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=94.34  E-value=0.011  Score=48.43  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=22.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|.+.++|.
T Consensus        23 i~~G~~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          23 VKKGEVVVIIGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            445566789999999999999988884

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

>KOG1533|consensus

Probab=94.34  E-value=0.028  Score=47.53  Aligned_cols=30  Identities=30%  Similarity=0.513  Sum_probs=22.9

Q ss_pred             ceeEEEcCCCCCCCcccc------cccCCceeeccC
Q psy7782          33 KGVILYGPPGTGKTLPFS------PALGYHYYCRGA   62 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~------~~~~~~~~~~~~   62 (225)
                      -|.+..||||+||||.+.      +..|.+++.++.
T Consensus         3 fgqvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNL   38 (290)
T KOG1533|consen    3 FGQVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNL   38 (290)
T ss_pred             cceEEEcCCCCCccchhhhHHHHHHHhCCceEEEec
Confidence            478899999999999884      566766655543

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=94.34  E-value=0.012  Score=48.28  Aligned_cols=27  Identities=33%  Similarity=0.464  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          23 VEKGEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            344555779999999999999988885

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.

>KOG1802|consensus

Probab=94.34  E-value=0.04  Score=52.73  Aligned_cols=54  Identities=20%  Similarity=0.243  Sum_probs=32.0

Q ss_pred             EEEcCCCCCCCcccc-------cccCCceeeccCCCCCCccchhhhhhcCCCCCCccccccc
Q psy7782          36 ILYGPPGTGKTLPFS-------PALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVGKKK   90 (225)
Q Consensus        36 Ll~GppGtGKT~la~-------~~~~~~~~~~~~~~~~~~~~~f~~a~~~~p~iid~igk~r   90 (225)
                      |+-||||||||...+       ...+.+++..-+++ -++-.+-++..+..=-|+-..+|+|
T Consensus       429 LIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSN-iAVDqLaeKIh~tgLKVvRl~aksR  489 (935)
T KOG1802|consen  429 LIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSN-IAVDQLAEKIHKTGLKVVRLCAKSR  489 (935)
T ss_pred             eeecCCCCCceehhHHHHHHHHHhcCCceEEEcccc-hhHHHHHHHHHhcCceEeeeehhhh
Confidence            789999999999764       22345555444444 4445555555555533344445554

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.32  E-value=0.025  Score=51.48  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=18.3

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      ++-++|.||+|+||||++..++
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA  262 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMA  262 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHH
Confidence            5678999999999999886443

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=94.32  E-value=0.016  Score=51.26  Aligned_cols=24  Identities=21%  Similarity=0.517  Sum_probs=20.3

Q ss_pred             CCCceeEEEcCCCCCCCccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ...+.+++.||+|+|||+++++.+
T Consensus       146 ~~~~~ilI~G~tGSGKTTll~aL~  169 (319)
T PRK13894        146 RAHRNILVIGGTGSGKTTLVNAII  169 (319)
T ss_pred             HcCCeEEEECCCCCCHHHHHHHHH
Confidence            456899999999999999987544

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=94.27  E-value=0.016  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...+++|+.||+|+|||+++++.
T Consensus       142 ~~~~nilI~G~tGSGKTTll~aL  164 (323)
T PRK13833        142 DSRLNIVISGGTGSGKTTLANAV  164 (323)
T ss_pred             HcCCeEEEECCCCCCHHHHHHHH
Confidence            44679999999999999998643

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.26  E-value=0.022  Score=52.33  Aligned_cols=19  Identities=42%  Similarity=0.607  Sum_probs=16.2

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+-++|.||+|+||||++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~  239 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLA  239 (424)
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            4578899999999999764

>KOG0745|consensus

Probab=94.23  E-value=0.019  Score=52.50  Aligned_cols=27  Identities=37%  Similarity=0.598  Sum_probs=22.2

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~   58 (225)
                      ...|||.||.|+|||+||+   ...+.||.
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfa  255 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFA  255 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeE
Confidence            4689999999999999996   45566666

>cd00876 Ras Ras family

Probab=94.22  E-value=0.012  Score=45.11  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=18.8

Q ss_pred             eEEEcCCCCCCCcccccccCCc
Q psy7782          35 VILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~   56 (225)
                      +++.||||+|||+|+.+..+..
T Consensus         2 i~i~G~~~~GKTsli~~l~~~~   23 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKGT   23 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999998776554

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=94.22  E-value=0.013  Score=45.33  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|+||+|||+++.+..+..+
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~~   25 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGKF   25 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999987766554

Rab GTPases are implicated in vesicle trafficking.

>KOG2383|consensus

Probab=94.22  E-value=0.023  Score=51.46  Aligned_cols=20  Identities=55%  Similarity=1.041  Sum_probs=18.2

Q ss_pred             CCCceeEEEcCCCCCCCccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la   49 (225)
                      .+|+|+.|||.-|||||+|-
T Consensus       112 ~~PkGlYlYG~VGcGKTmLM  131 (467)
T KOG2383|consen  112 GPPKGLYLYGSVGCGKTMLM  131 (467)
T ss_pred             CCCceEEEecccCcchhHHH
Confidence            46999999999999999974

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=94.20  E-value=0.013  Score=49.06  Aligned_cols=27  Identities=37%  Similarity=0.535  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          24 INPGEFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            444556779999999999999988874

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=94.20  E-value=0.012  Score=48.26  Aligned_cols=27  Identities=33%  Similarity=0.481  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        25 i~~G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        25 IRKGEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344455779999999999999988885

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.

>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=94.18  E-value=0.012  Score=48.96  Aligned_cols=27  Identities=19%  Similarity=0.202  Sum_probs=22.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          28 VPKGEIFGIIGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455667789999999999999988884

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.

>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=94.17  E-value=0.012  Score=48.39  Aligned_cols=27  Identities=30%  Similarity=0.381  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        24 i~~G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          24 ISAGEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344455779999999999999988884

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK04296 thymidine kinase; Provisional

Probab=94.14  E-value=0.015  Score=47.43  Aligned_cols=17  Identities=24%  Similarity=0.415  Sum_probs=14.5

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =.+++||||+|||+++.
T Consensus         4 i~litG~~GsGKTT~~l   20 (190)
T PRK04296          4 LEFIYGAMNSGKSTELL   20 (190)
T ss_pred             EEEEECCCCCHHHHHHH
Confidence            36899999999999873

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=94.12  E-value=0.018  Score=44.49  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=20.1

Q ss_pred             eEEEcCCCCCCCcccccccCCcee
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      +++.|+||+|||+++.+..+..+.
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~~~   25 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAELV   25 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCcc
Confidence            688999999999999877766554

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

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=94.12  E-value=0.012  Score=48.12  Aligned_cols=27  Identities=22%  Similarity=0.198  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        21 IEKGKMYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            344556789999999999999988884

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.11  E-value=0.019  Score=51.30  Aligned_cols=21  Identities=29%  Similarity=0.426  Sum_probs=19.0

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.++||+||+|+||+++|.
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~   39 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQ   39 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHH
Confidence            567899999999999999885

>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=94.07  E-value=0.014  Score=48.24  Aligned_cols=27  Identities=30%  Similarity=0.436  Sum_probs=22.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          23 VPEGEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            445556789999999999999988774

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=94.05  E-value=0.015  Score=47.81  Aligned_cols=27  Identities=33%  Similarity=0.635  Sum_probs=22.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          22 VKPGEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            344556789999999999999988885

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=94.05  E-value=0.0091  Score=49.08  Aligned_cols=30  Identities=13%  Similarity=0.297  Sum_probs=22.5

Q ss_pred             HHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          25 EEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        25 ~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..+.+...+-++|.||+|+|||++.+.+++
T Consensus        18 n~i~l~~g~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          18 NDIDMEKKNGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             ceEEEcCCcEEEEECCCCCChHHHHHHHHH
Confidence            333444456789999999999999986654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=94.05  E-value=0.02  Score=51.68  Aligned_cols=23  Identities=39%  Similarity=0.806  Sum_probs=20.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |++...-+++||||.||||+++-
T Consensus       258 g~PKKnClvi~GPPdTGKS~F~~  280 (432)
T PF00519_consen  258 GIPKKNCLVIYGPPDTGKSMFCM  280 (432)
T ss_dssp             TBTTSSEEEEESSCCCSHHHHHH
T ss_pred             CCCcccEEEEECCCCCchhHHHH
Confidence            56777888999999999999883

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.05  E-value=0.029  Score=50.09  Aligned_cols=23  Identities=35%  Similarity=0.364  Sum_probs=18.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..=++++||||||||.+|-
T Consensus       119 G~~~g~i~~i~G~~g~GKT~l~~  141 (342)
T PLN03186        119 GIETGSITEIYGEFRTGKTQLCH  141 (342)
T ss_pred             CCcCceEEEEECCCCCCccHHHH
Confidence            45555666799999999999985

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=94.04  E-value=0.012  Score=52.51  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +...+.+|+.||+|+|||+++++.++
T Consensus       159 v~~~~nilI~G~tGSGKTTll~aLl~  184 (344)
T PRK13851        159 VVGRLTMLLCGPTGSGKTTMSKTLIS  184 (344)
T ss_pred             HHcCCeEEEECCCCccHHHHHHHHHc
Confidence            45678999999999999999874443

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=94.04  E-value=0.014  Score=48.08  Aligned_cols=27  Identities=33%  Similarity=0.434  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        26 ITKGEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344556779999999999999988884

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=94.04  E-value=0.016  Score=48.47  Aligned_cols=27  Identities=26%  Similarity=0.365  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        23 VKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344455789999999999999999886

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=94.04  E-value=0.014  Score=47.12  Aligned_cols=27  Identities=22%  Similarity=0.284  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        15 i~~Ge~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        15 AERGEVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            445556779999999999999988884

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=94.03  E-value=0.015  Score=44.62  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=20.3

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -+++.|+||+|||+|+.+..+-.|.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~~~   27 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNHFV   27 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCc
Confidence            3788999999999999877665553

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.03  E-value=0.021  Score=51.59  Aligned_cols=31  Identities=26%  Similarity=0.449  Sum_probs=23.2

Q ss_pred             ChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          20 HPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        20 ~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      .+++-.-+  |+.+..-+|++||||+|||+++.
T Consensus        68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLll  100 (372)
T cd01121          68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLL  100 (372)
T ss_pred             CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHH
Confidence            34444433  47777778999999999999885

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK12338 hypothetical protein; Provisional

Probab=94.01  E-value=0.016  Score=51.09  Aligned_cols=20  Identities=25%  Similarity=0.346  Sum_probs=17.5

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.-+++.|+||||||++|+
T Consensus         3 ~p~ii~i~G~sGsGKST~a~   22 (319)
T PRK12338          3 KPYVILIGSASGIGKSTIAS   22 (319)
T ss_pred             CcEEEEEECCCCCCHHHHHH
Confidence            35678999999999999996

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.00  E-value=0.014  Score=47.74  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||.+.++|.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          23 LYAGEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344455789999999999999988884

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.

>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=93.99  E-value=0.016  Score=48.41  Aligned_cols=27  Identities=37%  Similarity=0.604  Sum_probs=21.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          23 VRPGEIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            344455779999999999999988884

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).

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=93.99  E-value=0.015  Score=48.90  Aligned_cols=27  Identities=22%  Similarity=0.317  Sum_probs=22.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         25 CPQGETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344556789999999999999988884

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=93.99  E-value=0.017  Score=52.81  Aligned_cols=22  Identities=36%  Similarity=0.693  Sum_probs=18.9

Q ss_pred             CCCceeEEEcCCCCCCCccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~   51 (225)
                      ....++++.||||||||++|.+
T Consensus       207 e~~~Nli~lGp~GTGKThla~~  228 (449)
T TIGR02688       207 EPNYNLIELGPKGTGKSYIYNN  228 (449)
T ss_pred             hcCCcEEEECCCCCCHHHHHHH
Confidence            3457999999999999999864

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>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=93.98  E-value=0.014  Score=45.22  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=22.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.+.||+|+|||+|++..+|.
T Consensus        23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          23 INPGDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            455567789999999999999988774

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.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=93.98  E-value=0.018  Score=47.21  Aligned_cols=26  Identities=19%  Similarity=0.091  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCCCCcccc--cc-cCCceee
Q psy7782          34 GVILYGPPGTGKTLPFS--PA-LGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~--~~-~~~~~~~   59 (225)
                      -|.+.||+|+|||++++  +. .|.++++
T Consensus         3 ~i~itG~~gsGKst~~~~l~~~~g~~~i~   31 (195)
T PRK14730          3 RIGLTGGIASGKSTVGNYLAQQKGIPILD   31 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCeEee
Confidence            37799999999999997  33 3666663

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=93.96  E-value=0.015  Score=48.36  Aligned_cols=27  Identities=19%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        30 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         30 LRAGEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            345556789999999999999988884

>PF01057 Parvo_NS1: Parvovirus non-structural protein NS1; InterPro: IPR001257 Parvoviruses are some of the smallest viruses containing linear, non-segmented single-stranded DNA genomes, with an average genome size of 5000 nucleotides

Probab=93.93  E-value=0.027  Score=48.62  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+...+.|||||+||||.+|.++++
T Consensus       111 ~krNti~~~Gp~~tGKt~la~aI~~  135 (271)
T PF01057_consen  111 GKRNTIWFYGPASTGKTNLADAIAN  135 (271)
T ss_dssp             TT--EEEEESTTTSSHCHCHHCCCH
T ss_pred             cCccEEEEEcCCCCCHHHHHHHHHH
Confidence            4567899999999999999987766

Parvoviruses have been described that infect a wide range of invertebrates and vertebrates and are well known for causing enteric disease in mammals. Genomes contains two large ORFs: NS1 and VP1; other ORFs are found in some sub-types and different gene products can arise from splice variants and the use of different start codons []. This entry represents the helicase domain of the Parvovirus NS1 protein; which is required for viral DNA replication []. This domain contains the ATP/GTP-binding site motif A (P-loop). Parvoviral NS1 also regulates host gene expression through histone acetylation []. ; GO: 0019079 viral genome replication; PDB: 3P0S_A 1S9H_A 1U0J_A.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=93.93  E-value=0.017  Score=45.66  Aligned_cols=26  Identities=15%  Similarity=0.263  Sum_probs=20.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      +.++|.|+||+|||+|+.+..+..+.
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~   27 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFV   27 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc
Confidence            46899999999999999866665443

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

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=93.91  E-value=0.034  Score=49.15  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=18.3

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.++||+||+|+||+++|.
T Consensus        24 rl~HA~Lf~Gp~G~GK~~lA~   44 (319)
T PRK08769         24 RLGHGLLICGPEGLGKRAVAL   44 (319)
T ss_pred             CcceeEeeECCCCCCHHHHHH
Confidence            456789999999999999884

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=93.91  E-value=0.014  Score=48.13  Aligned_cols=27  Identities=26%  Similarity=0.315  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||.+.++|.
T Consensus        28 i~~G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        28 IGKGEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            445556779999999999999988885

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=93.91  E-value=0.016  Score=44.92  Aligned_cols=25  Identities=20%  Similarity=0.344  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -|++.|+||+|||+|+.+..+..+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~   26 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFV   26 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCC
Confidence            3788999999999999877665543

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=93.91  E-value=0.017  Score=44.64  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=20.3

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      .|++.|+||+|||+|+.+.++..+.
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~   26 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFV   26 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC
Confidence            3789999999999999877665543

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=93.91  E-value=0.015  Score=46.22  Aligned_cols=27  Identities=37%  Similarity=0.613  Sum_probs=22.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|.+.++|.
T Consensus        25 i~~G~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          25 IKPGEKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcC
Confidence            455667789999999999999988885

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.90  E-value=0.014  Score=46.23  Aligned_cols=27  Identities=22%  Similarity=0.309  Sum_probs=22.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|.+.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          23 VRRGEVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455667789999999999999988874

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=93.90  E-value=0.018  Score=46.51  Aligned_cols=16  Identities=44%  Similarity=0.567  Sum_probs=14.6

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |.+.|+||+|||++|+
T Consensus         2 i~i~G~sgsGKttla~   17 (179)
T cd02028           2 VGIAGPSGSGKTTFAK   17 (179)
T ss_pred             EEEECCCCCCHHHHHH
Confidence            5789999999999997

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=93.89  E-value=0.016  Score=49.00  Aligned_cols=27  Identities=26%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (252)
T TIGR03005        23 VAAGEKVALIGPSGSGKSTILRILMTL   49 (252)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455566789999999999999988874

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PLN02199 shikimate kinase

Probab=93.89  E-value=0.024  Score=49.56  Aligned_cols=31  Identities=29%  Similarity=0.441  Sum_probs=25.1

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      ..+.|+|.|++|||||++++   ...|.+|++..
T Consensus       101 ~~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD  134 (303)
T PLN02199        101 NGRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCD  134 (303)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCCEEehH
Confidence            45789999999999999997   34678888543

>TIGR00959 ffh signal recognition particle protein

Probab=93.89  E-value=0.026  Score=51.87  Aligned_cols=20  Identities=35%  Similarity=0.708  Sum_probs=17.2

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.-+++.||||+|||++|.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaa  117 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCG  117 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHH
Confidence            36778999999999999874

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=93.89  E-value=0.027  Score=51.70  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=17.0

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ++.-++|.||+|+||||++.
T Consensus        99 ~~~vi~lvG~~GvGKTTtaa  118 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCT  118 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            35678899999999999875

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=93.88  E-value=0.015  Score=47.34  Aligned_cols=16  Identities=38%  Similarity=0.592  Sum_probs=14.3

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |-+.||||+||||+|+
T Consensus         2 IgI~G~sgSGKTTla~   17 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAK   17 (194)
T ss_dssp             EEEEESTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            4588999999999996

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 ....

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=93.87  E-value=0.015  Score=52.74  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      --.|++||||||||+|++.++
T Consensus       170 QR~lIvgppGvGKTTLaK~Ia  190 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIA  190 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHH
Confidence            346889999999999997433

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=93.86  E-value=0.037  Score=43.47  Aligned_cols=20  Identities=35%  Similarity=0.566  Sum_probs=17.6

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+||.+|+|+|||.++.
T Consensus        24 ~~~~~ll~~~tGsGKT~~~~   43 (184)
T PF04851_consen   24 EERRVLLNAPTGSGKTIIAL   43 (184)
T ss_dssp             GCSEEEEEESTTSSHHHHHH
T ss_pred             CCCCEEEEECCCCCcChhhh
Confidence            45789999999999999875

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=93.86  E-value=0.017  Score=47.83  Aligned_cols=27  Identities=33%  Similarity=0.436  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||.+.++|.
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          28 IKKGETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344455789999999999999988874

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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=93.85  E-value=0.016  Score=48.82  Aligned_cols=27  Identities=26%  Similarity=0.304  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         26 IPDNTITALMGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            344556789999999999999988874

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=93.84  E-value=0.016  Score=49.01  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=22.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   52 (253)
T TIGR02323        26 LYPGEVLGIVGESGSGKSTLLGCLAGR   52 (253)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            455567789999999999999988774

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=93.81  E-value=0.024  Score=47.94  Aligned_cols=20  Identities=30%  Similarity=0.466  Sum_probs=17.0

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      -+-..|+.||||||||++.+
T Consensus       136 g~lntLiigpP~~GKTTlLR  155 (308)
T COG3854         136 GWLNTLIIGPPQVGKTTLLR  155 (308)
T ss_pred             CceeeEEecCCCCChHHHHH
Confidence            35578999999999999875

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=93.81  E-value=0.016  Score=45.43  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=21.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      --|++.|+||+|||+|+.+..+..|-
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~   29 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFN   29 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCC
Confidence            36889999999999999877665543

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

>KOG0064|consensus

Probab=93.80  E-value=0.02  Score=53.58  Aligned_cols=30  Identities=30%  Similarity=0.515  Sum_probs=24.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC-Cce
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG-YHY   57 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~-~~~   57 (225)
                      .+.+...+|+.||.||||+++.+-..| +|+
T Consensus       504 ~i~~G~hLLItGPNGCGKSSLfRILggLWPv  534 (728)
T KOG0064|consen  504 QIEPGMHLLITGPNGCGKSSLFRILGGLWPV  534 (728)
T ss_pred             EecCCceEEEECCCCccHHHHHHHHhccCcc
Confidence            356778999999999999999986666 444

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=93.80  E-value=0.017  Score=47.31  Aligned_cols=26  Identities=31%  Similarity=0.461  Sum_probs=21.2

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||+|+|||||++.++|.
T Consensus        25 ~~G~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          25 KKGEFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34445679999999999999988884

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.

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=93.78  E-value=0.018  Score=47.93  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=22.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        30 i~~Ge~~~l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          30 VESGQVMAILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCc
Confidence            455567789999999999999988875

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.77  E-value=0.015  Score=47.52  Aligned_cols=19  Identities=26%  Similarity=0.142  Sum_probs=15.6

Q ss_pred             eEEEcCCCCCCCccccccc
Q psy7782          35 VILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~   53 (225)
                      |.+.|+||||||++|+..+
T Consensus         2 i~i~G~sgsGKTtla~~l~   20 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQ   20 (187)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4678999999999997443

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>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=93.76  E-value=0.018  Score=48.15  Aligned_cols=27  Identities=22%  Similarity=0.502  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          23 VRRGEILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            445556789999999999999988874

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.

>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=93.76  E-value=0.015  Score=48.34  Aligned_cols=28  Identities=25%  Similarity=0.291  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCCc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      +.+..-+.|.||+|+|||||++.++|..
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          23 IPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3445557799999999999999888853

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).

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=93.75  E-value=0.016  Score=47.60  Aligned_cols=27  Identities=37%  Similarity=0.539  Sum_probs=22.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          23 IADGEFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            445566789999999999999988884

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=93.75  E-value=0.015  Score=47.64  Aligned_cols=22  Identities=32%  Similarity=0.295  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      -+.|.||+|+|||+|++.++|.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            4569999999999999988874

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.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=93.74  E-value=0.016  Score=48.05  Aligned_cols=25  Identities=32%  Similarity=0.612  Sum_probs=20.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||+|+|||||.+.++|.
T Consensus        28 ~G~~~~i~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          28 PGETVAIVGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3344789999999999999988874

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.

>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=93.73  E-value=0.018  Score=47.90  Aligned_cols=27  Identities=41%  Similarity=0.568  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          23 VKQGEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            344555779999999999999988874

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=93.72  E-value=0.019  Score=50.35  Aligned_cols=27  Identities=30%  Similarity=0.480  Sum_probs=21.9

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      -+.....+++.||+|+|||+++++.++
T Consensus       140 ~v~~~~~ili~G~tGsGKTTll~al~~  166 (308)
T TIGR02788       140 AIASRKNIIISGGTGSGKTTFLKSLVD  166 (308)
T ss_pred             HhhCCCEEEEECCCCCCHHHHHHHHHc
Confidence            355678999999999999999875544

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.71  E-value=0.018  Score=46.82  Aligned_cols=27  Identities=22%  Similarity=0.301  Sum_probs=22.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         23 FLPSAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            455667789999999999999988884

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.71  E-value=0.016  Score=47.79  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        34 i~~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         34 VDAGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             ECCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            455566789999999999999988884

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=93.70  E-value=0.019  Score=46.76  Aligned_cols=28  Identities=29%  Similarity=0.509  Sum_probs=23.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCCc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      +.+..-+.|.||+|+|||+|.+.++|..
T Consensus        32 i~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          32 AKPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4455677899999999999999888853

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=93.68  E-value=0.017  Score=47.55  Aligned_cols=27  Identities=37%  Similarity=0.555  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          28 VKPGEVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            344455789999999999999988884

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd04113 Rab4 Rab4 subfamily

Probab=93.67  E-value=0.018  Score=44.62  Aligned_cols=24  Identities=25%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|+||+|||+|+.+..+..+
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~   25 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKF   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCC
Confidence            378999999999999986655443

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

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=93.67  E-value=0.018  Score=47.01  Aligned_cols=27  Identities=33%  Similarity=0.495  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.+.||+|+|||+|++.++|.
T Consensus        28 i~~G~~~~i~G~nG~GKSTLl~~i~G~   54 (204)
T cd03250          28 VPKGELVAIVGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            445566789999999999999988774

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=93.65  E-value=0.016  Score=48.00  Aligned_cols=27  Identities=30%  Similarity=0.444  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        27 i~~G~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          27 VEEGEFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            344455779999999999999988885

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=93.65  E-value=0.018  Score=48.28  Aligned_cols=27  Identities=37%  Similarity=0.508  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          25 IPSGELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            344555779999999999999988884

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.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=93.65  E-value=0.018  Score=45.67  Aligned_cols=27  Identities=41%  Similarity=0.742  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.+.||+|+|||+|++.++|.
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          24 IKPGDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            445566789999999999999988774

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=93.64  E-value=0.018  Score=48.34  Aligned_cols=27  Identities=37%  Similarity=0.549  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         26 VNSGEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            455666789999999999999988884

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=93.62  E-value=0.032  Score=48.87  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=19.3

Q ss_pred             CCCceeEEEcCCCCCCCccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ..|--+++.||+|||||++|...+
T Consensus        90 ~~p~iIlI~G~sgsGKStlA~~La  113 (301)
T PRK04220         90 KEPIIILIGGASGVGTSTIAFELA  113 (301)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            345679999999999999997433

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=93.62  E-value=0.019  Score=47.93  Aligned_cols=27  Identities=22%  Similarity=0.306  Sum_probs=22.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        32 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         32 IGEGEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            344455779999999999999988885

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=93.61  E-value=0.018  Score=48.02  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=21.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          25 IPAGETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            344445789999999999999988875

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.

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=93.61  E-value=0.016  Score=54.76  Aligned_cols=29  Identities=17%  Similarity=0.173  Sum_probs=24.4

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~   61 (225)
                      .-|.|.|+||||||++++   ...|++|++..
T Consensus         7 ~~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D   38 (542)
T PRK14021          7 PQAVIIGMMGAGKTRVGKEVAQMMRLPFADAD   38 (542)
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            468899999999999987   56789999664

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=93.61  E-value=0.02  Score=47.30  Aligned_cols=26  Identities=27%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||+|+|||+|++.++|.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          26 YKGEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            44445779999999999999988884

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.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=93.59  E-value=0.024  Score=47.16  Aligned_cols=27  Identities=33%  Similarity=0.454  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   29 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILGL   29 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            345566789999999999999988874

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=93.59  E-value=0.021  Score=48.82  Aligned_cols=27  Identities=22%  Similarity=0.114  Sum_probs=22.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        34 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         34 FPAGKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            345556679999999999999988884

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=93.59  E-value=0.018  Score=49.01  Aligned_cols=27  Identities=26%  Similarity=0.568  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         24 LESGELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            444556789999999999999988774

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=93.57  E-value=0.021  Score=47.65  Aligned_cols=29  Identities=24%  Similarity=0.563  Sum_probs=23.5

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+.+..-+.|.||+|+|||||++.++|.
T Consensus        20 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   48 (232)
T PRK10771         20 LTVERGERVAILGPSGAGKSTLLNLIAGF   48 (232)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            33456667789999999999999988774

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=93.57  E-value=0.019  Score=46.57  Aligned_cols=28  Identities=32%  Similarity=0.443  Sum_probs=23.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCCc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      +.+..-+.|.||+|+|||+|++.++|..
T Consensus        30 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   57 (192)
T cd03232          30 VKPGTLTALMGESGAGKTTLLDVLAGRK   57 (192)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3455567899999999999999988853

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=93.57  E-value=0.019  Score=48.39  Aligned_cols=27  Identities=33%  Similarity=0.455  Sum_probs=21.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         26 VKPGEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344445779999999999999988884

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=93.57  E-value=0.018  Score=48.14  Aligned_cols=27  Identities=37%  Similarity=0.568  Sum_probs=22.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        24 VRPGEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455566779999999999999988874

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=93.56  E-value=0.025  Score=52.99  Aligned_cols=23  Identities=48%  Similarity=0.765  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ...++|+||||||||++++.+.+
T Consensus       210 G~~llliG~~GsGKTtLak~L~g  232 (506)
T PRK09862        210 GHNLLLIGPPGTGKTMLASRING  232 (506)
T ss_pred             CcEEEEECCCCCcHHHHHHHHhc
Confidence            45699999999999999986655

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=93.56  E-value=0.026  Score=46.08  Aligned_cols=27  Identities=26%  Similarity=0.175  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCCCCcccc--cccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFS--PALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~--~~~~~~~~~   59 (225)
                      .-|.|.|++|||||++++  +..|.++++
T Consensus         3 ~~i~ltG~~gsGKst~~~~l~~~g~~~i~   31 (194)
T PRK00081          3 LIIGLTGGIGSGKSTVANLFAELGAPVID   31 (194)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHcCCEEEE
Confidence            358899999999999997  335655543

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.55  E-value=0.018  Score=46.95  Aligned_cols=27  Identities=26%  Similarity=0.289  Sum_probs=22.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||+|++.++|.
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         24 LPAGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            345566789999999999999988774

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=93.55  E-value=0.022  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -+.+.|+||+|||+++.+..+..+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~~~   26 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDEFV   26 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCc
Confidence            3789999999999999866654443

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	225
3h43_A	85	Proteasome-activating nucleotidase; regulatory par	8e-28
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	2e-26
2wg5_A	109	General control protein GCN4, proteasome-activatin	7e-25
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	5e-19
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	9e-19
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-18
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-17
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	4e-16
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	9e-04
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	5e-16
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	2e-13
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	5e-13
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	9e-13
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-12
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	1e-12
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	6e-11
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	1e-10
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	4e-10
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	5e-10
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	6e-10
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	7e-10
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	1e-09
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	1e-09
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	1e-09
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	1e-09
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-09
2wfw_A	153	ARC; ATP-binding protein, proteasomal atpases, PAN	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	5e-04

>3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii} Length = 85

 Score =  100 bits (250), Expect = 8e-28
 Identities = 26/82 (31%), Positives = 42/82 (51%)

Query: 143 EKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS 202
           ++NE  R  +D +R  P+ VGT+ + + +   +V +S G    V++  FV+ D L PG  
Sbjct: 2   KENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKR 61

Query: 203 VLLNHKVHAVVGVLSDDTDPMV 224
           V LN +   VV VL +      
Sbjct: 62  VCLNQQTLTVVDVLPELEHHHH 83

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  101 bits (255), Expect = 2e-26
 Identities = 32/45 (71%), Positives = 41/45 (91%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          L+ Q+QEI+E VELPL HPE +E++GI+PPKG++LYGPPGTGKTL
Sbjct: 22 LEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTL 66

>2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A Length = 109

 Score = 93.4 bits (232), Expect = 7e-25
 Identities = 28/99 (28%), Positives = 53/99 (53%)

Query: 127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYV 186
                 + +++++    KN    + V  LR  P+ VG + +I++D   +V +S G +  V
Sbjct: 5   HHHRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFVV 64

Query: 187 SILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
           +   ++++++L+PG  V LN +  A+V VL    DPMV 
Sbjct: 65  NTSQYINEEELKPGARVALNQQTLAIVNVLPTSKDPMVY 103

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 83.7 bits (207), Expect = 5e-19
 Identities = 27/45 (60%), Positives = 36/45 (80%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
              Q+ +IKE VELPL HP  ++ +G+KPP+G++LYGPPGTGKTL
Sbjct: 209 CRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTL 253

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score = 81.9 bits (203), Expect = 9e-19
 Identities = 20/40 (50%), Positives = 30/40 (75%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTL
Sbjct: 25 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTL 64

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 80.7 bits (200), Expect = 1e-18
 Identities = 16/40 (40%), Positives = 28/40 (70%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E+  ++  P+ +P+ ++ +G+  P GV+L GPPG GKTL
Sbjct: 20 EELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTL 59

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A Length = 251

 Score = 73.7 bits (180), Expect = 5e-16
 Identities = 24/99 (24%), Positives = 38/99 (38%), Gaps = 1/99 (1%)

Query: 127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYV 186
           +     +  E LK   ++    R  VD L   P   G L    DD+   V TS G +  +
Sbjct: 66  LAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVDVFTS-GRKMRL 124

Query: 187 SILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
           +    +D   L+ G +V LN  +  V     +    + T
Sbjct: 125 TCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEIST 163

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 66.6 bits (163), Expect = 2e-13
 Identities = 21/45 (46%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           DV  Q ++E V LP   PE +  +   P KG++L+GPPG GKTL
Sbjct: 26 QDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTL 69

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score = 65.8 bits (161), Expect = 5e-13
 Identities = 19/45 (42%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          L+   + +KE+V LP+  P  ++    KP  G++LYGPPGTGK+ 
Sbjct: 23 LEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSY 66

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 65.1 bits (159), Expect = 9e-13
 Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          L+   + +KE+V LP+  P  +      P +G++L+GPPGTGK+ 
Sbjct: 17 LEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSY 60

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score = 65.2 bits (159), Expect = 1e-12
 Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           ++     IKE V  P+  P+ +  +   PPKG++L+GPPGTGKTL
Sbjct: 89  VEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTL 132

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 64.9 bits (158), Expect = 1e-12
 Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
            D+  Q ++E V LP   PE +  +   P +G++L+GPPG GKT+
Sbjct: 120 QDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTM 163

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 59.6 bits (145), Expect = 6e-11
 Identities = 20/40 (50%), Positives = 27/40 (67%), Gaps = 1/40 (2%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           E++E V+  L  PE + ++G K PKG +L GPPG GKTL
Sbjct: 16 LEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTL 54

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score = 58.6 bits (142), Expect = 1e-10
 Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 3/45 (6%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
              +  + +  EL +   +  +     P   V+L GPP +GKT 
Sbjct: 38 WGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLEGPPHSGKTA 79

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score = 57.3 bits (139), Expect = 4e-10
 Identities = 23/40 (57%), Positives = 29/40 (72%), Gaps = 1/40 (2%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E+ E V+  L +PE Y  +G K PKGV+L GPPGTGKTL
Sbjct: 21 EEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score = 57.7 bits (139), Expect = 5e-10
 Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L+   + +KE+V LP+  P  +      P +G++L+GPPGTGK+ 
Sbjct: 139 LEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSY 182

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score = 57.2 bits (138), Expect = 6e-10
 Identities = 19/45 (42%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          L+   + +KE+V LP+  P  ++    KP  G++LYGPPGTGK+ 
Sbjct: 56 LEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSY 99

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 56.6 bits (137), Expect = 7e-10
 Identities = 22/45 (48%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +   +E+KE VE  L +P  + EMG + PKGV+L GPPG GKT 
Sbjct: 45 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score = 56.8 bits (138), Expect = 1e-09
 Identities = 22/40 (55%), Positives = 28/40 (70%), Gaps = 1/40 (2%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E+KE VE  L +P  + EMG + PKGV+L GPPG GKT 
Sbjct: 41 EELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 55.8 bits (135), Expect = 1e-09
 Identities = 22/45 (48%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +   +E+KE VE  L +P  + EMG + PKGV+L GPPG GKT 
Sbjct: 21 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 64

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score = 56.4 bits (137), Expect = 1e-09
 Identities = 21/40 (52%), Positives = 28/40 (70%), Gaps = 1/40 (2%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E+KE VE  L  P  +  +G + PKG++L GPPGTGKTL
Sbjct: 26 EELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTL 64

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 55.8 bits (135), Expect = 1e-09
 Identities = 21/40 (52%), Positives = 29/40 (72%), Gaps = 1/40 (2%)

Query: 8  QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          +E+ E VE  L  P  ++++G K PKGV++ GPPGTGKTL
Sbjct: 22 EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 56.0 bits (135), Expect = 1e-09
 Identities = 8/46 (17%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 3  LDVQIQEIKESVELPLTHPE-YYEEMGIKPPKGVILYGPPGTGKTL 47
            +    + +   L +   + + +   IK P  + ++G  G GK+ 
Sbjct: 9  FYIAPAFMDK---LVVHITKNFLKLPNIKVPLILGIWGGKGQGKSF 51

>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA, ATP-binding, nucleotide-binding; 1.60A {Rhodococcus erythropolis} PDB: 3fp9_A Length = 153

 Score = 49.6 bits (118), Expect = 5e-08
 Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 1/73 (1%)

Query: 153 DDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAV 212
           D L   P   G L  + +D    V TS G +  ++    +D D L  G +V LN  +  V
Sbjct: 1   DRLGQPPSGYGVLLSVHEDKTVDVFTS-GRKMRLTCSPNIDTDTLALGQTVRLNEALTIV 59

Query: 213 VGVLSDDTDPMVT 225
                +    + T
Sbjct: 60  EAGTYEQVGEIST 72

>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 = 44.8 bits (105), Expect = 1e-05
 Identities = 40/285 (14%), Positives = 77/285 (27%), Gaps = 85/285 (29%)

Query: 16  LPLTHPEYYEE-----MGIKPPKGVILYGPPGTGKT---------LPFSPALGYHYY--- 58
             ++  + Y +     + ++P K V++ G  G+GKT               + +  +   
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 59  ---CRGAGS----------NSDKKDDKDKKKKYEPPIPTRVGKKKRK-----AKGPDAAI 100
              C    +            D              +     + + +         +  +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 101 KLPQV-TPHT------KCRLKLLKLER---IKDYLLMEEEFIRNQERLKPQEEKNEEER- 149
            L  V            C  K+L   R   + D+L        + +        +E +  
Sbjct: 249 VLLNVQNAKAWNAFNLSC--KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 150 ------SRVDDLR-----GTPMSVGTLEEIIDDNHAIVSTSVGSEHYVS------ILSFV 192
                  R  DL        P  +  + E I D  A   T    +H         I S +
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA---TWDNWKHVNCDKLTTIIESSL 363

Query: 193 DKDQLEPG--------CSVLLNHKVH---AVVGVL---SDDTDPM 223
             + LEP          SV      H    ++ ++      +D M
Sbjct: 364 --NVLEPAEYRKMFDRLSVFPPS-AHIPTILLSLIWFDVIKSDVM 405

>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* Length = 180

 Score = 38.5 bits (90), Expect = 5e-04
 Identities = 8/25 (32%), Positives = 11/25 (44%)

Query: 22 EYYEEMGIKPPKGVILYGPPGTGKT 46
           +      +  KG+   G PG GKT
Sbjct: 28 VFVHNFNPEEGKGLTFVGSPGVGKT 52

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	225
2wg5_A	109	General control protein GCN4, proteasome-activatin	99.95
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.95
3h43_A	85	Proteasome-activating nucleotidase; regulatory par	99.92
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.89
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.88
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.87
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.86
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.86
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.85
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	99.84
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.77
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.75
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.75
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.74
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.65
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.57
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.48
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.45
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.45
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.45
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.37
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.36
2wfw_A	153	ARC; ATP-binding protein, proteasomal atpases, PAN	99.34
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.34
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.3
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.3
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.3
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.29
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.28
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.27
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.22
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.21
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.15
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.15
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.12
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.04
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.02
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.01
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.92
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.9
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.6
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.55
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.5
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.44
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.41
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.33
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.29
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.22
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.21
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.16
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.15
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.13
3pvs_A	447	Replication-associated recombination protein A; ma	98.11
3co5_A	143	Putative two-component system transcriptional RES	98.1
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.07
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.07
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.04
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.91
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.88
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.86
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.84
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.8
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.79
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.75
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.74
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.71
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.71
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.67
3bos_A	242	Putative DNA replication factor; P-loop containing	97.64
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.62
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.61
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.61
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.61
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.6
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.58
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.58
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.57
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.56
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.53
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.52
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.52
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.52
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.47
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.45
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.43
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.4
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.39
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.38
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	97.32
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.3
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.29
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.28
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.26
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.25
2qgz_A	308	Helicase loader, putative primosome component; str	97.24
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.16
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.99
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.99
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.96
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.95
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.81
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.77
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.75
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.74
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.7
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.68
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.65
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.64
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.64
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.58
2wfw_A	153	ARC; ATP-binding protein, proteasomal atpases, PAN	96.48
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.47
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.41
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.37
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.34
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.32
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.28
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	96.28
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.25
1via_A	175	Shikimate kinase; structural genomics, transferase	96.25
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.24
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.17
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.16
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.15
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.14
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.11
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.11
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.1
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.08
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.08
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.06
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.03
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.01
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.99
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	95.99
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.96
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.95
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.89
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.89
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.88
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.88
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.87
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.84
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.8
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.8
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.79
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.79
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.78
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.78
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.77
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.76
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.75
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.74
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.74
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.73
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.72
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.69
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.69
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.63
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.61
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.58
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.58
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.56
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.54
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.53
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.51
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.49
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.49
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.42
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.42
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.35
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.34
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.31
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.28
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.23
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.23
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.22
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.21
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.2
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.2
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.17
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.14
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.14
2fna_A	357	Conserved hypothetical protein; structural genomic	95.08
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.07
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.07
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.06
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.04
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.04
2og2_A	359	Putative signal recognition particle receptor; nuc	95.03
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.03
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.02
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.01
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.98
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.97
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.94
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.92
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.89
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.89
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.85
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.84
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.82
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.82
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.81
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.81
3io5_A	333	Recombination and repair protein; storage dimer, i	94.8
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.79
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.77
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.75
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.74
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.73
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.72
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.71
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.71
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.69
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.64
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.61
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.6
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.58
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.52
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.52
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.49
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.49
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.46
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.38
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.33
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.31
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.29
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.28
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.21
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.2
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.15
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.11
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	94.11
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.07
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.05
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.05
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.02
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.99
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.95
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.94
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.92
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.92
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.88
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.83
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	93.81
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.81
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.76
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.68
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.63
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.61
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	93.6
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.58
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.53
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.52
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.52
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.47
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.47
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.46
1g6h_A	257	High-affinity branched-chain amino acid transport	93.46
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.4
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.38
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.36
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.36
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.35
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.34
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.33
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.33
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.32
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.31
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.3
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.28
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.27
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.27
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	93.23
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.22
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.19
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.19
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.19
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.18
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.17
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.13
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.13
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.11
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.1
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.09
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.07
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.06
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.04
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	93.03
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.03
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.03
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.02
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.93
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.92
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.87
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.87
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	92.85
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.81
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	92.76
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.75
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	92.75
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.73
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.72
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.68
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.68
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	92.66
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.65
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	92.6
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.6
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.59
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	92.56
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.53
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.52
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	92.51
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.5
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.5
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.48
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.47
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.47
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.46
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.46
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.46
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.46
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.42
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.37
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.37
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.34
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.3
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	92.26
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	92.24
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.22
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.19
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	92.17
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.17
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.17
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.16
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	92.15
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	92.15
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.14
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.09
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.09
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.05
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.03
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	91.93
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.92
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.86
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	91.83
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.82
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	91.7
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.7
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	91.68
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.67
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	91.65
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.65
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.64
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.62
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	91.6
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	91.57
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.56
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	91.55
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.55
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	91.52
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.52
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.51
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	91.51
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.48
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	91.48
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	91.42
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.4
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	91.4
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	91.38
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.36
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	91.34
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	91.33
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.29
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.23
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.18
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.17
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	91.15
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.11
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.08
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.08
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.07
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	91.06
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	90.99
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	90.98
3ice_A	422	Transcription termination factor RHO; transcriptio	90.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	90.94
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	90.94
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	90.92
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	90.91
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	90.89
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.88
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	90.87
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	90.86
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	90.86
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	90.85
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	90.8
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	90.8
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	90.8
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	90.79
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.75
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	90.74
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	90.74
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.65
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	90.6
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	90.57
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	90.54
1ah9_A	71	IF1, initiation factor 1; ribosome binding, protei	90.52
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	90.49
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	90.43
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.43
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	90.38
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	90.37
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	90.35
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	90.32
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	90.28
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.21
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.17
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	90.17
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	90.16
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	90.15
1j3b_A	529	ATP-dependent phosphoenolpyruvate carboxykinase; a	90.11
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	90.11
2oqk_A	117	Putative translation initiation factor EIF-1A; mal	90.08
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.57
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	90.06
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	90.05
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.04
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	90.02
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	90.01
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	89.99
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	89.97
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	89.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	89.92
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	89.87
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	89.86
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	89.85
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	89.83
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	89.81
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	89.81
2olr_A	540	Phosphoenolpyruvate carboxykinase; carbon dioxide,	89.79
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	89.75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	89.72
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	89.71
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	89.65
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	89.65
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	89.62
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	89.6
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	89.56
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	89.55
2fh5_B	214	SR-beta, signal recognition particle receptor beta	89.43
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	89.41
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	89.4
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	89.31
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	89.23
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	89.22
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	89.21
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	89.05
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	89.05
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	89.04
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	89.02
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	89.0
1ytm_A	532	Phosphoenolpyruvate carboxykinase [ATP], phosphoen	88.96
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	88.94
1ii2_A	524	Phosphoenolpyruvate carboxykinase; phosphate bindi	88.93
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	88.92
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	88.9
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	88.86
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	88.79
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	88.73
3f8t_A	506	Predicted ATPase involved in replication control,	88.65
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	88.6
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	88.59
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	88.58
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	88.51
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	88.5
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	88.5
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	88.42
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	88.41
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	88.37
2xxa_A	433	Signal recognition particle protein; protein trans	88.35
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	88.32
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	88.29
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	88.28
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	88.16
3i4o_A	79	Translation initiation factor IF-1; cytoplasm, pro	88.15
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	88.14
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	88.08
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	88.07
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	87.96
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	87.92
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	87.84
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	87.8
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	87.79
2dgy_A	111	MGC11102 protein; EIF-1A, structural genomics, NPP	87.74
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	87.66
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	87.62

>2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A

Probab=99.95  E-value=2.2e-28  Score=181.62  Aligned_cols=93  Identities=30%  Similarity=0.571  Sum_probs=80.6

Q ss_pred             HHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCccee
Q psy7782         133 RNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAV  212 (225)
Q Consensus       133 ~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~I  212 (225)
                      +++.+++.++++++.+++|+++|++||+.||+|+|++|++++||++++|++|||+++++||+++|+||+||+||+++|+|
T Consensus        11 ~l~~~~~~l~~~i~~lkeel~~L~~~P~~Vg~v~e~~d~~~~iVk~s~g~~~~V~v~~~Vd~~~LkpG~rVaLn~~s~~I   90 (109)
T 2wg5_A           11 QLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFVVNTSQYINEEELKPGARVALNQQTLAI   90 (109)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEEEECTTSCEEEEETTSCEEEECBCTTSCTTTCCTTCEEEEETTTCCE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEecCCEEEEEeCCCCEEEEEcccccCHHHCCCCCEEEECCcceEe
Confidence            34456677888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeccCCCCCCCCC
Q psy7782         213 VGVLSDDTDPMVT  225 (225)
Q Consensus       213 v~vLp~~~D~~v~  225 (225)
                      |++||+++||+|+
T Consensus        91 v~iLp~e~Dp~V~  103 (109)
T 2wg5_A           91 VNVLPTSKDPMVY  103 (109)
T ss_dssp             EEEEC--------
T ss_pred             EEeCCCCcCccch
Confidence            9999999999985

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.5e-28  Score=220.90  Aligned_cols=152  Identities=61%  Similarity=1.046  Sum_probs=92.9

Q ss_pred             hhhhcCCCCCCccccccccccCCCCccccCCccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHHHHH
Q psy7782          73 DKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRV  152 (225)
Q Consensus        73 ~~a~~~~p~iid~igk~r~~~~g~~~~~~l~~v~p~~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev  152 (225)
                      .+-.++.|.+...+|++++ ++|+++++++|++.|+++|+++++++||++++|+++++++++++.++.++++.++.++++
T Consensus        18 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (437)
T 4b4t_I           18 NQKPKYEPPVQSKFGRKKR-KGGPATAEKLPNIYPSTRCKLKLLRMERIKDHLLLEEEFVSNSEILKPFEKKQEEEKKQL   96 (437)
T ss_dssp             ----------------------------------------------------------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccCCCCCccccccccC-CCCcchhhcCcccCCcchhhHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHHHHHH
Confidence            3456677888888997765 579999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         153 DDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       153 ~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      ++++++|+.||+|+|++|++++||++++|++|||++.+++|++.|+||++|+||+++++|+++||+++||+|+
T Consensus        97 ~~~~~~p~~~g~~~~~~~~~~~iv~~~~~~~~~v~~~~~~~~~~l~~~~~v~l~~~~~~~~~~l~~~~d~~~~  169 (437)
T 4b4t_I           97 EEIRGNPLSIGTLEEIIDDDHAIVTSPTMPDYYVSILSFVDKELLEPGCSVLLHHKTMSIVGVLQDDADPMVS  169 (437)
T ss_dssp             HHHHCSSEEEEEEEEECTTSEEEEECSSSCCCEEECCTTSCGGGCCTTCEEEECTTTCCEEEEECCCSSCCCC
T ss_pred             HhhcCCCceeEEEEEEecCCEEEEEcCCCCEEEEecccccCHhHccCCcEEEEeccCccceeecCCccCCcce
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999985

>3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii}

Probab=99.92  E-value=8.5e-25  Score=154.96  Aligned_cols=76  Identities=34%  Similarity=0.580  Sum_probs=73.3

Q ss_pred             hhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCC
Q psy7782         143 EKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSD  218 (225)
Q Consensus       143 ~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~  218 (225)
                      +|++.+++|+++|++||+.||+|+|++|++++||++++|++|||+++++||+++|+||+||+||+++|+||++||.
T Consensus         2 ~ev~~lkeei~~L~~~P~~vG~v~e~~dd~~~iVkss~g~~~~V~v~~~Vd~~~LkpG~rVaLn~~s~~Iv~vLp~   77 (85)
T 3h43_A            2 KENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKRVCLNQQTLTVVDVLPE   77 (85)
T ss_dssp             HHHHHHHHHHHHHHSCCEEEEEEEEEEETTEEEEEETTSSEEEEEBCTTSCGGGCCTTCEEEECTTTCCEEEECC-
T ss_pred             cHHHHHHHHHHHhcCCCceEEEEEEEcCCCEEEEEeCCCCeEEEEecCccCHHHCCCCCEEEECCcccCHhhhhhh
Confidence            5788999999999999999999999999999999999999999999999999999999999999999999999995

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.89  E-value=4.7e-24  Score=190.79  Aligned_cols=90  Identities=39%  Similarity=0.636  Sum_probs=80.7

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      ||+++|++|++.+.+|+++|++|..+|+.+|+|+|||||||||||++|+   .+++.+|+.++.++        + ..+|
T Consensus       152 Gl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGese~~vr  231 (405)
T 4b4t_J          152 GLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVR  231 (405)
T ss_dssp             SCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchHHHHHH
Confidence            8999999999999999999999999999999999999999999999997   45568888776655        3 5569


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|..|++++||||     |+++.+|.
T Consensus       232 ~lF~~Ar~~aP~IIFiDEiDai~~~R~  258 (405)
T 4b4t_J          232 ELFVMAREHAPSIIFMDEIDSIGSTRV  258 (405)
T ss_dssp             HHHHHHHHTCSEEEEEESSSCCTTSCS
T ss_pred             HHHHHHHHhCCceEeeecchhhccCCC
Confidence            99999999999997     88887765

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=2.5e-23  Score=187.00  Aligned_cols=90  Identities=50%  Similarity=0.709  Sum_probs=80.4

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      ||+++|++|++.+.+|+++|++|..+|+.+|+|+|||||||||||++|+   .+++.+|+.++.++        + ..+|
T Consensus       186 Gld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vGesek~ir  265 (437)
T 4b4t_I          186 GLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCR  265 (437)
T ss_dssp             SCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSSHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCchHHHHHH
Confidence            8999999999999999999999999999999999999999999999997   44568888776655        3 4568


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      .+|..|++++||||     |+++.+|.
T Consensus       266 ~lF~~Ar~~aP~IIfiDEiDai~~~R~  292 (437)
T 4b4t_I          266 QIFKVAGENAPSIVFIDEIDAIGTKRY  292 (437)
T ss_dssp             HHHHHHHHTCSEEEEEEEESSSSCCCS
T ss_pred             HHHHHHHhcCCcEEEEehhhhhcccCC
Confidence            99999999999997     88887775

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=6e-23  Score=185.76  Aligned_cols=91  Identities=41%  Similarity=0.691  Sum_probs=81.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .||++++++|++.+.+|+++|++|..+|+.+|+|+|||||||||||++|+   ..+|++|+.++.++        + ..+
T Consensus       184 gGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Gese~~i  263 (437)
T 4b4t_L          184 GGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARII  263 (437)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHHHHHH
Confidence            38999999999999999999999999999999999999999999999997   45668888777665        2 446


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|..|+.++||||     |+++.+|.
T Consensus       264 r~~F~~A~~~~P~IifiDEiDai~~~R~  291 (437)
T 4b4t_L          264 REMFAYAKEHEPCIIFMDEVDAIGGRRF  291 (437)
T ss_dssp             HHHHHHHHHSCSEEEEEECCCSSSCCCS
T ss_pred             HHHHHHHHhcCCceeeeecccccccccc
Confidence            899999999999997     88887775

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=4.4e-23  Score=186.52  Aligned_cols=91  Identities=34%  Similarity=0.574  Sum_probs=80.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .|++++|++|.+.+.+|+++|++|..+|+++|+|+|||||||||||++|+   ..++.+|+.++.++        + ..+
T Consensus       184 gGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGese~~i  263 (434)
T 4b4t_M          184 GGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLV  263 (434)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccchHHHHH
Confidence            48999999999999999999999999999999999999999999999997   45568888776655        3 556


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      |.+|..|+.++||||     |+++.+|.
T Consensus       264 r~lF~~A~~~aP~IifiDEiDal~~~R~  291 (434)
T 4b4t_M          264 RDAFALAKEKAPTIIFIDELDAIGTKRF  291 (434)
T ss_dssp             HHHHHHHHHHCSEEEEEECTHHHHCCCS
T ss_pred             HHHHHHHHhcCCeEEeecchhhhhhccC
Confidence            899999999999997     77777664

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=4.4e-23  Score=186.28  Aligned_cols=91  Identities=37%  Similarity=0.642  Sum_probs=80.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .||+++|++|++.+.+|+.+|++|..+|+.+|+|+|||||||||||++|++   .++.+|+.++.++        + ..+
T Consensus       175 gGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~~Ge~e~~i  254 (428)
T 4b4t_K          175 GGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMV  254 (428)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSSCSHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccccchhHHHH
Confidence            389999999999999999999999999999999999999999999999984   4568888777665        2 456


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|..|+.++|||+     |+++.+|.
T Consensus       255 r~lF~~A~~~aP~IifiDEiD~i~~~R~  282 (428)
T 4b4t_K          255 RDVFRLARENAPSIIFIDEVDSIATKRF  282 (428)
T ss_dssp             HHHHHHHHHTCSEEEEEECTHHHHCSCS
T ss_pred             HHHHHHHHHcCCCeeechhhhhhhcccc
Confidence            899999999999997     77777664

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.1e-22  Score=184.29  Aligned_cols=91  Identities=33%  Similarity=0.508  Sum_probs=80.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      .||+++|++|++.+.+|+.+|+.|..+|+.+|+|+|||||||||||++|+   .+++.+|+.++.++        + ..+
T Consensus       212 gGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~vGesek~i  291 (467)
T 4b4t_H          212 GGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMV  291 (467)
T ss_dssp             TTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSSSHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccCCHHHHHH
Confidence            38999999999999999999999999999999999999999999999997   44568888776555        3 556


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      |.+|..|+.++||||     |+++.+|.
T Consensus       292 r~lF~~Ar~~aP~IIfiDEiDai~~~R~  319 (467)
T 4b4t_H          292 RELFEMARTKKACIIFFDEIDAVGGARF  319 (467)
T ss_dssp             HHHHHHHHHTCSEEEEEECCTTTSBCCS
T ss_pred             HHHHHHHHhcCCceEeeccccccccccc
Confidence            899999999999997     77887765

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=99.84  E-value=7e-21  Score=157.78  Aligned_cols=95  Identities=23%  Similarity=0.210  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeE
Q psy7782         124 YLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSV  203 (225)
Q Consensus       124 ~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V  203 (225)
                      ...+..++.++...++.+++|+.++++|+++|++||++||||++++|++.++|+ ++|++|+|+++++||.++|+||++|
T Consensus        63 l~~L~arNe~L~~~Lk~ar~El~~LkeElerL~sPPL~iGtvlev~dd~~aiV~-s~Gr~~~V~Vsp~Vd~e~LkPG~rV  141 (251)
T 3m9b_A           63 IDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVDVF-TSGRKMRLTCSPNIDAASLKKGQTV  141 (251)
T ss_dssp             HHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEEEECSSSCEEEE-CSSSCCEECBCTTSCTTTSCSSCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEcCCCEEEEE-eCCceEEEEeCCCCCHHHCCCCCEE
Confidence            344445556667788999999999999999999999999999999999999998 5889999999999999999999999


Q ss_pred             EecCCcceeeeccCCCC
Q psy7782         204 LLNHKVHAVVGVLSDDT  220 (225)
Q Consensus       204 ~ln~~~~~Iv~vLp~~~  220 (225)
                      +||+ +|+||++||++.
T Consensus       142 aLNe-SlaVVevLp~E~  157 (251)
T 3m9b_A          142 RLNE-ALTVVEAGTFEA  157 (251)
T ss_dssp             EECT-TCCBCCCCCCCC
T ss_pred             EeCC-ccEEEEecCCCC
Confidence            9986 999999999986

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.77  E-value=1.5e-20  Score=180.75  Aligned_cols=91  Identities=29%  Similarity=0.546  Sum_probs=78.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeecc--------CCCC-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRG--------AGSN-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~--------~~~~-~~~   68 (225)
                      .||+++|++|++.+.+|+++|+.|.++|+.+++|+|||||||||||++|+   .+++.+|+.+.        +|++ +.+
T Consensus       480 ggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~v  559 (806)
T 3cf2_A          480 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANV  559 (806)
T ss_dssp             CSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHH
T ss_pred             CCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHH
Confidence            38999999999999999999999999999999999999999999999997   66778888664        4455 667


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|+.|++++||||     |+++.+|.
T Consensus       560 r~lF~~Ar~~~P~IifiDEiDsl~~~R~  587 (806)
T 3cf2_A          560 REIFDKARQAAPCVLFFDELDSIAKARG  587 (806)
T ss_dssp             HHHHHHHHTTCSEEEECSCGGGCC----
T ss_pred             HHHHHHHHHcCCceeechhhhHHhhccC
Confidence            999999999999997     77777765

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.75  E-value=1.2e-17  Score=150.90  Aligned_cols=115  Identities=30%  Similarity=0.514  Sum_probs=104.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEee
Q psy7782         109 TKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSI  188 (225)
Q Consensus       109 ~~c~lr~~~le~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v  188 (225)
                      ..+..++.+++++.++|.++.++++.  +.+.+++++..+++|+++++++|+.||+|+|.+|++++||++++|++|+|++
T Consensus        45 ~dl~~~lk~le~~~~~L~~e~e~l~~--~~~~~~~e~~~~~ee~~~l~~~~~~vg~~~e~~d~~~~iv~~~~~~~~~v~~  122 (428)
T 4b4t_K           45 SDIYFKLKKLEKEYELLTLQEDYIKD--EQRHLKRELKRAQEEVKRIQSVPLVIGQFLEPIDQNTGIVSSTTGMSYVVRI  122 (428)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHTCSCEEEEEEEEEEETTEEEEEETTSCEEEECB
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHcCCCceeeEEEEEccCCeeEEecCCCCEEEEec
Confidence            46777888999999999999887655  4457889999999999999999999999999999999999999999999999


Q ss_pred             cCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         189 LSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       189 ~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      .+.+|++.|+||++|+||.+++.|+.+||.++||.|+
T Consensus       123 ~~~~~~~~~~~~~~v~~~~~~~~~~~~l~~~~d~~v~  159 (428)
T 4b4t_K          123 LSTLDRELLKPSMSVALHRHSNALVDILPPDSDSSIS  159 (428)
T ss_dssp             CSSSCTTTCCTTCEEEECSSSCCEEEEECSCCCCSSC
T ss_pred             cccccHhhCCCCceeeeecchhhHHhhcCcccCcchh
Confidence            9999999999999999999999999999999999874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.75  E-value=8e-18  Score=150.51  Aligned_cols=120  Identities=17%  Similarity=0.201  Sum_probs=94.8

Q ss_pred             CCchhhHHHHHHHHHHHHHHHHHHH----HHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCC
Q psy7782         106 TPHTKCRLKLLKLERIKDYLLMEEE----FIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVG  181 (225)
Q Consensus       106 ~p~~~c~lr~~~le~~~~~l~~~~~----~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g  181 (225)
                      .+..++.++.++.+++.++.....+    ..+++.+.+.++++++.+++|++.|+++|+.||+|++.+|++++||++++|
T Consensus        12 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~e~~~l~~~~~~v~~~~~~~~~~~~iv~~~~~   91 (405)
T 4b4t_J           12 LETHESGIKPYFEQKIQETELKIRSKTENVRRLEAQRNALNDKVRFIKDELRLLQEPGSYVGEVIKIVSDKKVLVKVQPE   91 (405)
T ss_dssp             ------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECTTSCEEEEESSS
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEecCCeEEEEeCCC
Confidence            3445677777777776666443333    334455556788888899999999999999999999999999999999999


Q ss_pred             CeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         182 SEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       182 ~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      ++|+|++.+.+++++|+||++|+||.++|+|+++||+++||+|+
T Consensus        92 ~~~~v~~~~~~~~~~l~~~~~v~l~~~~~~~~~~l~~~~~~~~~  135 (405)
T 4b4t_J           92 GKYIVDVAKDINVKDLKASQRVCLRSDSYMLHKVLENKADPLVS  135 (405)
T ss_dssp             CEEEECCCTTSCTTTCCSSCEEEEETTTCSCCEECCCCCSCCTT
T ss_pred             CEEEEecccccCHhhCCCcceeeeecccceeeeecCcccCchhh
Confidence            99999999999999999999999999999999999999999984

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.74  E-value=2.8e-19  Score=172.00  Aligned_cols=90  Identities=37%  Similarity=0.706  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCcc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDKK   69 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~~   69 (225)
                      |+++++++|++.+.+||++|+.|..+|+.+|+|||||||||||||++|+   .++|.+|+.++..+        + ..++
T Consensus       208 Gl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~gese~~lr  287 (806)
T 3cf2_A          208 GCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLR  287 (806)
T ss_dssp             SCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchHHHHHHH
Confidence            8999999999999999999999999999999999999999999999997   56778898776544        3 4568


Q ss_pred             chhhhhhcCCCCCC-----cccccccc
Q psy7782          70 DDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        70 ~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      ++|+.|+.++||||     |+++.+|.
T Consensus       288 ~lF~~A~~~~PsIIfIDEiDal~~~r~  314 (806)
T 3cf2_A          288 KAFEEAEKNAPAIIFIDELDAIAPKRE  314 (806)
T ss_dssp             HHHHHHTTSCSEEEEEESGGGTCCTTT
T ss_pred             HHHHHHHHcCCeEEEEehhcccccccC
Confidence            99999999999997     77777664

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.65  E-value=6.7e-16  Score=139.66  Aligned_cols=99  Identities=19%  Similarity=0.394  Sum_probs=88.8

Q ss_pred             HHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEec
Q psy7782         127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLN  206 (225)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln  206 (225)
                      ++.+.......++.++++..+.+++++.|+++|+.||++++.+|++++||++++|++|+|++.+.++.+.|+||++|+||
T Consensus        70 ~e~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~vg~~~~~~~~~~~iv~~~~g~~~~v~~~~~~~~~~l~~g~~v~~~  149 (437)
T 4b4t_L           70 YDDQLKQRRQNIRDLEKLYDKTENDIKALQSIGQLIGEVMKELSEEKYIVKASSGPRYIVGVRNSVDRSKLKKGVRVTLD  149 (437)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEEECSSSSCEEEEETTSCEEEECBCSSSCTTSCCTTCEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCceeeeheeeecCCcEEEEECCCCEEEEecccccCHhhcCCCceeeEc
Confidence            34444444445566777888889999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcceeeeccCCCCCCCCC
Q psy7782         207 HKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       207 ~~~~~Iv~vLp~~~D~~v~  225 (225)
                      .++++|+++||.++||+|+
T Consensus       150 ~~~~~~~~~l~~~~d~~~~  168 (437)
T 4b4t_L          150 ITTLTIMRILPRETDPLVY  168 (437)
T ss_dssp             SSSCSEEEECCCCSCCCCS
T ss_pred             ccchhHHHhcCcccCchhh
Confidence            9999999999999999874

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.57  E-value=7.3e-15  Score=132.77  Aligned_cols=99  Identities=24%  Similarity=0.365  Sum_probs=86.5

Q ss_pred             HHHHHHHHHhhhchhhhhHHHHHHHHhhhcCCCceeeEEEEEecCC--------------------------eEEEEccC
Q psy7782         127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDN--------------------------HAIVSTSV  180 (225)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~l~~ev~~l~~~p~~vg~v~e~~d~~--------------------------~~iV~~~~  180 (225)
                      ++.+..+...++..+++++++.+++++.++++|+.||+++|++|.+                          .++|++++
T Consensus        44 l~~e~~r~~~e~~~~~~~~~~~~~~i~~~~~~p~~v~~~~e~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~  123 (434)
T 4b4t_M           44 FRSELQRLSHENNVMLEKIKDNKEKIKNNRQLPYLVANVVEVMDMNEIEDKENSESTTQGGNVNLDNTAVGKAAVVKTSS  123 (434)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSCCEEEECCC---------------------------CCSEEEEEETT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchhhhhhhhhccchhhhhccchhhhhhhhhhhhhcccCceEEEEcCC
Confidence            3445556666777888899999999999999999999999998643                          68999999


Q ss_pred             CCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCCCCCCC
Q psy7782         181 GSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       181 g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      |++|+|++.+++|++.|+||++|+||.++++|+++||+++||+|+
T Consensus       124 ~~~~~~~~~~~~~~~~l~~~~~v~~~~~~~~~~~~l~~~~d~~~~  168 (434)
T 4b4t_M          124 RQTVFLPMVGLVDPDKLKPNDLVGVNKDSYLILDTLPSEFDSRVK  168 (434)
T ss_dssp             SCEEEEECCSSSCTTTSCSSEEEEECSSSCSEEEEEEESSSCSCS
T ss_pred             CCeEEEecccccCHhHCCCCCEEeEcCcchhhheecCcccCchhh
Confidence            999999999999999999999999999999999999999999984

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=99.48  E-value=7.9e-15  Score=126.28  Aligned_cols=83  Identities=29%  Similarity=0.546  Sum_probs=73.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++.|.+.+.+|+.+|+.|..+|+.+++|+|||||||||||++|+   ..++.+|+.++.++        . ..+
T Consensus        18 ~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~~~~~~   97 (301)
T 3cf0_A           18 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANV   97 (301)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTTCTTHH
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCchHHHH
Confidence            58999999999999999999999999999999999999999999999997   44568888776433        2 456


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+|||+
T Consensus        98 ~~~f~~a~~~~p~il  112 (301)
T 3cf0_A           98 REIFDKARQAAPCVL  112 (301)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            899999999999987

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.45  E-value=2.7e-14  Score=130.54  Aligned_cols=90  Identities=31%  Similarity=0.537  Sum_probs=75.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++++++.+.+ +.+++.|..+|...++|+||+||||||||++|++   .++.+|+.++.++        + ..+
T Consensus        19 ~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~~~~~   97 (476)
T 2ce7_A           19 GGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARV   97 (476)
T ss_dssp             CSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcccHHHH
Confidence            5899999999999987 8899999999999999999999999999999984   4568888776554        2 456


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|..|+..+|||+     |.++.++.
T Consensus        98 r~lf~~A~~~~p~ILfIDEid~l~~~r~  125 (476)
T 2ce7_A           98 RDLFAQAKAHAPCIVFIDEIDAVGRHRG  125 (476)
T ss_dssp             HHHHHHHHHTCSEEEEEETGGGTCCC--
T ss_pred             HHHHHHHHhcCCCEEEEechhhhhhhcc
Confidence            899999999999997     55665553

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.45  E-value=9e-15  Score=127.35  Aligned_cols=82  Identities=24%  Similarity=0.466  Sum_probs=69.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---c-CCceeeccCCC--------C-CC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---L-GYHYYCRGAGS--------N-SD   67 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~-~~~~~~~~~~~--------~-~~   67 (225)
                      .|++++++.|.+.+.+|+++|+.|.. +..+++|+|||||||||||++|++.   + +.+|+.++.++        . ..
T Consensus        15 ~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g~~~~~   93 (322)
T 1xwi_A           15 AGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKL   93 (322)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCCSCHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhhHHHHH
Confidence            58999999999999999999999985 3678899999999999999999733   3 67888777655        2 33


Q ss_pred             ccchhhhhhcCCCCCC
Q psy7782          68 KKDDKDKKKKYEPPIP   83 (225)
Q Consensus        68 ~~~~f~~a~~~~p~ii   83 (225)
                      ++.+|..|+..+||||
T Consensus        94 ~~~lf~~a~~~~~~vl  109 (322)
T 1xwi_A           94 VKNLFQLARENKPSII  109 (322)
T ss_dssp             HHHHHHHHHHTSSEEE
T ss_pred             HHHHHHHHHhcCCcEE
Confidence            5799999999999997

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.45  E-value=1e-14  Score=124.33  Aligned_cols=83  Identities=24%  Similarity=0.443  Sum_probs=71.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCCC---------CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGSN---------SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~~---------~~~   68 (225)
                      .|+++++++|++.+.+|+.+++.|..+++.+++|++||||||||||++++++   .+..++.++..+-         ..+
T Consensus        13 ~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~~~~~i   92 (274)
T 2x8a_A           13 GALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAV   92 (274)
T ss_dssp             CHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhHHHHHH
Confidence            3899999999999999999999999999999999999999999999999854   4466777765541         235


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|+.|+...||++
T Consensus        93 ~~vf~~a~~~~p~i~  107 (274)
T 2x8a_A           93 RQVFQRAKNSAPCVI  107 (274)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHhcCCCeE
Confidence            689999999999986

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.37  E-value=4.4e-13  Score=121.54  Aligned_cols=69  Identities=22%  Similarity=0.273  Sum_probs=64.5

Q ss_pred             CCCceeeEEEEEe----------------------------------cCCeEEEEccCCCeEEEeecCCCCcCCCCCCCe
Q psy7782         157 GTPMSVGTLEEII----------------------------------DDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS  202 (225)
Q Consensus       157 ~~p~~vg~v~e~~----------------------------------d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~  202 (225)
                      ..|+.|+++.+++                                  |++++||++++|++|+|+++++||+++|+||++
T Consensus        94 ~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~v~~~~~~~~~~l~~g~~  173 (467)
T 4b4t_H           94 EHPLQVARCTKIIKGNGESDETTTDNNNSGNSNSNSNQQSTDADEDDEDAKYVINLKQIAKFVVGLGERVSPTDIEEGMR  173 (467)
T ss_dssp             -CCSSSEEEEECCCC--------------------------------CCCCCEEEETTSCCBCCCCCTTCCSSSCCTTCE
T ss_pred             ccchhHhhhHhHhccccccccccccccccccccccccccCccccccCCCCcEEEEecCCCeEEEecCCcCCHHHCCCCCE
Confidence            6799999999997                                  356899999999999999999999999999999


Q ss_pred             EEecCCcceeeeccCCCCCCCCC
Q psy7782         203 VLLNHKVHAVVGVLSDDTDPMVT  225 (225)
Q Consensus       203 V~ln~~~~~Iv~vLp~~~D~~v~  225 (225)
                      |+||+++|+|+.+||.++||+|+
T Consensus       174 v~l~~~~~~i~~~lp~~~d~~v~  196 (467)
T 4b4t_H          174 VGVDRSKYNIELPLPPRIDPSVT  196 (467)
T ss_dssp             ECSCTTSCCCCCSSCSSSCCCCC
T ss_pred             EEEccCcceeeecCCCccCCccc
Confidence            99999999999999999999985

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=99.36  E-value=3.5e-14  Score=123.30  Aligned_cols=82  Identities=27%  Similarity=0.500  Sum_probs=70.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++.|.+.+.+|+.+|+.|.. +..+++|+|||||||||||++|+   ..++.+|+.++.++        . ..+
T Consensus        21 ~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~   99 (322)
T 3eie_A           21 AGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLV   99 (322)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGHHHHH
T ss_pred             cChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchHHHHH
Confidence            58999999999999999999999987 55788999999999999999997   44578888776544        1 345


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+||||
T Consensus       100 ~~~f~~a~~~~~~vl  114 (322)
T 3eie_A          100 KQLFAMARENKPSII  114 (322)
T ss_dssp             HHHHHHHHHTSSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            799999999999987

>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA, ATP-binding, nucleotide-binding; 1.60A {Rhodococcus erythropolis} PDB: 3fp9_A

Probab=99.34  E-value=1.4e-12  Score=100.29  Aligned_cols=66  Identities=24%  Similarity=0.303  Sum_probs=57.8

Q ss_pred             hhhcCCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCcCCCCCCCeEEecCCcceeeeccCCCC
Q psy7782         153 DDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDT  220 (225)
Q Consensus       153 ~~l~~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~~~L~pG~~V~ln~~~~~Iv~vLp~~~  220 (225)
                      ++|.+||+.+|+|+...+++.+.| .++|++|+|.++|.||.+.|+||++|.||+ +++||+.++++.
T Consensus         1 ~~L~qPPstygt~l~~~~d~tadV-~t~GRkMrv~vsP~vd~~~L~~Gq~V~LNE-al~VVea~~~~~   66 (153)
T 2wfw_A            1 DRLGQPPSGYGVLLSVHEDKTVDV-FTSGRKMRLTCSPNIDTDTLALGQTVRLNE-ALTIVEAGTYEQ   66 (153)
T ss_dssp             ------CBEEEEEEEECTTSCEEE-EETTEEEEECBCTTCCGGGCCTTCEEEECT-TCCEEEECCCCC
T ss_pred             CcccCCCcceEEEEEEcCCCeEEE-EECCcEEEEEeCCCCCHHHCCCCCEEEECC-ceEEEEccCCCC
Confidence            468899999999999999999999 789999999999999999999999999999 999999999864

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.34  E-value=1.5e-13  Score=116.47  Aligned_cols=86  Identities=44%  Similarity=0.686  Sum_probs=73.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      +|++++++.|.+.+..++.+++.|..+|+.+++++|||||||||||++|+   ..++.+++.+...+      |   ...
T Consensus        20 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~   99 (285)
T 3h4m_A           20 GGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLV   99 (285)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccchHHHHH
Confidence            58999999999999999999999999999999999999999999999997   44567887776554      1   334


Q ss_pred             cchhhhhhcCCCCCC--ccc
Q psy7782          69 KDDKDKKKKYEPPIP--TRV   86 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii--d~i   86 (225)
                      +.+|..|+...|+|+  |.+
T Consensus       100 ~~~~~~~~~~~~~vl~iDEi  119 (285)
T 3h4m_A          100 KDIFKLAKEKAPSIIFIDEI  119 (285)
T ss_dssp             HHHHHHHHHTCSEEEEEETT
T ss_pred             HHHHHHHHHcCCeEEEEECH
Confidence            688999999999986  544

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.30  E-value=3.1e-13  Score=122.54  Aligned_cols=82  Identities=24%  Similarity=0.466  Sum_probs=69.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---c-CCceeeccCCC--------C-CC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---L-GYHYYCRGAGS--------N-SD   67 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~-~~~~~~~~~~~--------~-~~   67 (225)
                      +|++++++.|.+.+.+|+.+|+.|.. +..+++|+|||||||||||++|+++   + +.+|+.++.++        . ..
T Consensus       137 ~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g~~~~~  215 (444)
T 2zan_A          137 AGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKL  215 (444)
T ss_dssp             CSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------CCCT
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcchHHHH
Confidence            58999999999999999999999875 3567899999999999999999733   3 67888777655        2 44


Q ss_pred             ccchhhhhhcCCCCCC
Q psy7782          68 KKDDKDKKKKYEPPIP   83 (225)
Q Consensus        68 ~~~~f~~a~~~~p~ii   83 (225)
                      ++.+|..|+..+||||
T Consensus       216 ~~~~f~~a~~~~~~vl  231 (444)
T 2zan_A          216 VKNLFQLARENKPSII  231 (444)
T ss_dssp             HHHHHHHHHHSCSEEE
T ss_pred             HHHHHHHHHHcCCeEE
Confidence            5899999999999987

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.30  E-value=1e-13  Score=122.24  Aligned_cols=82  Identities=27%  Similarity=0.500  Sum_probs=70.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++.|.+.+.+|+.+|+.|.. +..+++|+|||||||||||++|+   ..++.+|+.++.++        . ..+
T Consensus        54 ~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~~~~~~  132 (355)
T 2qp9_X           54 AGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLV  132 (355)
T ss_dssp             CCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---CHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcchHHHHH
Confidence            58999999999999999999999987 56788999999999999999997   45578888776443        2 345


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+||||
T Consensus       133 ~~~f~~a~~~~~~vl  147 (355)
T 2qp9_X          133 KQLFAMARENKPSII  147 (355)
T ss_dssp             HHHHHHHHHTSSEEE
T ss_pred             HHHHHHHHHcCCeEE
Confidence            789999999999987

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=99.30  E-value=2.9e-13  Score=112.96  Aligned_cols=82  Identities=27%  Similarity=0.434  Sum_probs=64.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC---------CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN---------SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~---------~~~   68 (225)
                      +|++++++.|.+.+.+ +.+++.|..+|+..++++|||||||||||++|+   ...+.+++.++.++-         ...
T Consensus         9 ~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (262)
T 2qz4_A            9 AGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARV   87 (262)
T ss_dssp             CSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChhHHHH
Confidence            6899999999999988 889999999999999999999999999999997   445678887776551         334


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+|+|+
T Consensus        88 ~~~~~~a~~~~~~vl  102 (262)
T 2qz4_A           88 RSLFKEARARAPCIV  102 (262)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            688999999999986

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.29  E-value=4.7e-13  Score=112.47  Aligned_cols=85  Identities=36%  Similarity=0.568  Sum_probs=70.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++.|.+.+.+ +.+++.|..++...++|+|||||||||||++|++   .++.+++.++.++        + ..+
T Consensus        14 ~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~   92 (268)
T 2r62_A           14 AGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRV   92 (268)
T ss_dssp             SSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSSSCSSSS
T ss_pred             CCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcchHHHHH
Confidence            5889999999998887 8899999999999999999999999999999973   3456777665443        3 456


Q ss_pred             cchhhhhhcCCCCCC--ccc
Q psy7782          69 KDDKDKKKKYEPPIP--TRV   86 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii--d~i   86 (225)
                      +.+|+.|...+|+|+  |.+
T Consensus        93 ~~~~~~a~~~~~~vl~iDEi  112 (268)
T 2r62_A           93 RDLFETAKKQAPSIIFIDEI  112 (268)
T ss_dssp             STTHHHHHHSCSCEEEESCG
T ss_pred             HHHHHHHHhcCCeEEEEeCh
Confidence            899999999999986  444

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.28  E-value=3.8e-13  Score=123.44  Aligned_cols=83  Identities=39%  Similarity=0.714  Sum_probs=73.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      +|++++++.|.+.+.+|+.+|+.|..+|..+++|+|||||||||||++|+   ..++.+|+.++.++      |   ...
T Consensus       207 ~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~~~~  286 (489)
T 3hu3_A          207 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNL  286 (489)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcchhHHHH
Confidence            58999999999999999999999999999999999999999999999997   44678888877544      2   345


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|...+|||+
T Consensus       287 ~~~f~~A~~~~p~iL  301 (489)
T 3hu3_A          287 RKAFEEAEKNAPAII  301 (489)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHhcCCcEE
Confidence            789999999999987

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.27  E-value=4.9e-13  Score=111.92  Aligned_cols=82  Identities=34%  Similarity=0.515  Sum_probs=64.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++.+.+.+.+ +.+++.|..++...++|+|||||||||||++|+++   .+.+++.++..+        + ..+
T Consensus        15 ~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~~~~~~~~   93 (257)
T 1lv7_A           15 AGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRV   93 (257)
T ss_dssp             CSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHHHH
T ss_pred             cCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhhhhhHHHH
Confidence            5899999999998877 88899999999999999999999999999999744   456788776555        2 234


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|+.|+..+||++
T Consensus        94 ~~~~~~a~~~~~~il  108 (257)
T 1lv7_A           94 RDMFEQAKKAAPCII  108 (257)
T ss_dssp             HHHHHHHHTTCSEEE
T ss_pred             HHHHHHHHHcCCeee
Confidence            689999999999886

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.22  E-value=1.7e-12  Score=119.28  Aligned_cols=89  Identities=33%  Similarity=0.531  Sum_probs=73.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++++++.+.+ +.++..|..++...++|+|||||||||||++|+++   ++.+|+.++..+        + ..+
T Consensus        34 ~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g~~~~~v  112 (499)
T 2dhr_A           34 AGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARV  112 (499)
T ss_dssp             CSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTTHHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-hhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhhhHHHHH
Confidence            5899999999999887 88999999999999999999999999999999844   457788776554        2 345


Q ss_pred             cchhhhhhcCCCCCC-----ccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKK   90 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r   90 (225)
                      +.+|+.|+..+|||+     |.++.++
T Consensus       113 ~~lfq~a~~~~p~il~IDEId~l~~~r  139 (499)
T 2dhr_A          113 RDLFETAKRHAPCIVFIDEIDAVGRKR  139 (499)
T ss_dssp             HHHTTTSSSSSSCEEEEECGGGTCCCS
T ss_pred             HHHHHHHHhcCCCEEEEehHHHHHHhh
Confidence            789999999999986     5556554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.21  E-value=1.5e-12  Score=111.04  Aligned_cols=82  Identities=30%  Similarity=0.463  Sum_probs=69.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC---------CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN---------SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~---------~~~   68 (225)
                      +|++++++.|.+.+.+|+.+|+.|..++ .+++++|||||||||||++|+   ..++.+|+.++.++-         ...
T Consensus        24 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~~~~~~  102 (297)
T 3b9p_A           24 AGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLV  102 (297)
T ss_dssp             CCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSCHHHHH
T ss_pred             CChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccchHHHHH
Confidence            5899999999999999999999988765 568999999999999999997   445678887776551         234


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+...|+|+
T Consensus       103 ~~~~~~~~~~~~~vl  117 (297)
T 3b9p_A          103 RALFAVARHMQPSII  117 (297)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHHcCCcEE
Confidence            688999999999987

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.15  E-value=3.6e-12  Score=113.24  Aligned_cols=82  Identities=27%  Similarity=0.480  Sum_probs=70.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      +|++++++.|.+++.+|+.+++.|..++ .+++++|||||||||||++|+   ..++.+|+.++.++      |   ..+
T Consensus       118 iG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~  196 (389)
T 3vfd_A          118 AGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLV  196 (389)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------CHHHH
T ss_pred             CCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccchHHHHH
Confidence            6899999999999999999999988876 567999999999999999997   45678999888766      1   224


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+|+|+
T Consensus       197 ~~~~~~a~~~~~~il  211 (389)
T 3vfd_A          197 RALFAVARELQPSII  211 (389)
T ss_dssp             HHHHHHHHHSSSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            789999999999986

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=99.15  E-value=2.7e-12  Score=113.05  Aligned_cols=82  Identities=29%  Similarity=0.505  Sum_probs=69.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC---------CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN---------SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~---------~~~   68 (225)
                      +|++++++.|.+.+.+|+.+++.|...+ .+++++|||||||||||++|+   ..++.+|+.++.++-         ..+
T Consensus        87 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~~~  165 (357)
T 3d8b_A           87 AGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMV  165 (357)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccchHHHHH
Confidence            5899999999999999999999988765 678999999999999999997   456788888876651         234


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|..|+..+|+|+
T Consensus       166 ~~~~~~a~~~~~~vl  180 (357)
T 3d8b_A          166 RALFAVARCQQPAVI  180 (357)
T ss_dssp             HHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            788999999999987

>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=99.02  E-value=3.8e-11  Score=100.14  Aligned_cols=82  Identities=32%  Similarity=0.504  Sum_probs=66.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---CCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---GYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~~~~~~~~~~~--------~-~~~   68 (225)
                      +|+++++.++++.+.. +..+..+..+++..++|++|+||||||||+++++++   +.+++.++..+        + ..+
T Consensus        19 ~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i   97 (254)
T 1ixz_A           19 AGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARV   97 (254)
T ss_dssp             CSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHhhHHHHHH
Confidence            5889999999998877 778899999999999999999999999999998443   45666554322        1 334


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|+.+....|+++
T Consensus        98 ~~~~~~~~~~~~~i~  112 (254)
T 1ixz_A           98 RDLFETAKRHAPCIV  112 (254)
T ss_dssp             HHHHHHHTTSSSEEE
T ss_pred             HHHHHHHHhcCCeEE
Confidence            688999988889975

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.01  E-value=2.9e-11  Score=109.75  Aligned_cols=83  Identities=20%  Similarity=0.185  Sum_probs=62.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccC--CceeeccCCC------C--CC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALG--YHYYCRGAGS------N--SD   67 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~--~~~~~~~~~~------~--~~   67 (225)
                      +|++++++.+.+++.+        ...|..+++|+|||||||||||++|++   .++  .+|+.++.++      |  ..
T Consensus        40 iG~~~~~~~l~~~~~~--------~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~~~~~  111 (456)
T 2c9o_A           40 VGQENAREACGVIVEL--------IKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEV  111 (456)
T ss_dssp             ESCHHHHHHHHHHHHH--------HHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSCHHHH
T ss_pred             cCHHHHHHHHHHHHHH--------HHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhhhhHH
Confidence            5889999998887754        234667889999999999999999973   345  7888777665      2  23


Q ss_pred             ccchhhhh---hcCCCCCC-----cccccccc
Q psy7782          68 KKDDKDKK---KKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        68 ~~~~f~~a---~~~~p~ii-----d~igk~r~   91 (225)
                      ++++|..|   +..+|||+     |.++.+|.
T Consensus       112 ~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~  143 (456)
T 2c9o_A          112 LMENFRRAIGLRIKETKEVYEGEVTELTPCET  143 (456)
T ss_dssp             HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--
T ss_pred             HHHHHHHHHhhhhcCCcEEEEechhhcccccC
Confidence            57899999   88999997     66665554

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.92  E-value=1.6e-10  Score=97.78  Aligned_cols=82  Identities=32%  Similarity=0.504  Sum_probs=65.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---CCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---GYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++++++++.+.. +..+..+..+++..++|++|+||||||||+++++++   +..++.++..+        + ..+
T Consensus        43 ~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i  121 (278)
T 1iy2_A           43 AGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARV  121 (278)
T ss_dssp             SSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTTTHHHHHH
T ss_pred             CChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHhhHHHHHH
Confidence            5889999999998877 778899999999999999999999999999998443   35666554322        1 334


Q ss_pred             cchhhhhhcCCCCCC
Q psy7782          69 KDDKDKKKKYEPPIP   83 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii   83 (225)
                      +.+|+.+....|+++
T Consensus       122 ~~~~~~~~~~~~~i~  136 (278)
T 1iy2_A          122 RDLFETAKRHAPCIV  136 (278)
T ss_dssp             HHHHHHHHTSCSEEE
T ss_pred             HHHHHHHHhcCCcEE
Confidence            688999988889976

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.90  E-value=9.8e-11  Score=100.38  Aligned_cols=57  Identities=19%  Similarity=0.200  Sum_probs=45.8

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCccchhhhh----hcCCCCCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDKKDDKDKK----KKYEPPIP   83 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~~~~f~~a----~~~~p~ii   83 (225)
                      .+..+|+|+|||||||||||++|+   ..+|.+|+.++.++      |   ..++++|..|    +..+|||+
T Consensus        31 ~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl  103 (293)
T 3t15_A           31 PNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCL  103 (293)
T ss_dssp             TTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCE
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEE
Confidence            356789999999999999999997   44578998887554      2   3457889888    68899997

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=98.60  E-value=6.4e-09  Score=94.11  Aligned_cols=80  Identities=18%  Similarity=0.170  Sum_probs=60.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC-CCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-------C----
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK-PPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-------N----   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~-~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-------~----   65 (225)
                      +|++++|+.|...+..+++.+..+..++.. +++++||+||||||||++|+   ..++.+|+.+..+.       |    
T Consensus        18 vGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~d~e   97 (444)
T 1g41_A           18 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVD   97 (444)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCCTH
T ss_pred             CCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeeccHH
Confidence            699999999999998887776666555433 57899999999999999997   45678888665422       2    


Q ss_pred             CCccchhhhhhcCCC
Q psy7782          66 SDKKDDKDKKKKYEP   80 (225)
Q Consensus        66 ~~~~~~f~~a~~~~p   80 (225)
                      ..++++|..|+...|
T Consensus        98 ~~lr~lf~~a~~~~~  112 (444)
T 1g41_A           98 SIIRDLTDSAMKLVR  112 (444)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcch
Confidence            334788888876554

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.55  E-value=1.3e-08  Score=86.73  Aligned_cols=79  Identities=19%  Similarity=0.201  Sum_probs=56.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCC---CceeEEEcCCCCCCCccccccc----------CCceeeccCCC---
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKP---PKGVILYGPPGTGKTLPFSPAL----------GYHYYCRGAGS---   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~---~~giLl~GppGtGKT~la~~~~----------~~~~~~~~~~~---   64 (225)
                      +|++++++.|.+.+..+. .+..+.++|+..   ..++|||||||||||++|++++          ..+++.++..+   
T Consensus        34 ~G~~~~~~~l~~~~~~~~-~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~  112 (309)
T 3syl_A           34 IGLKPVKDRIRETAALLL-VERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVG  112 (309)
T ss_dssp             SSCHHHHHHHHHHHHHHH-HHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCC
T ss_pred             cChHHHHHHHHHHHHHHH-hHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhh
Confidence            699999999999999844 578888888665   3469999999999999996322          23677666544   


Q ss_pred             ---C---CCccchhhhhhcCCCCCC
Q psy7782          65 ---N---SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        65 ---~---~~~~~~f~~a~~~~p~ii   83 (225)
                         |   ...+.+|..+   .++|+
T Consensus       113 ~~~g~~~~~~~~~~~~~---~~~vl  134 (309)
T 3syl_A          113 QYIGHTAPKTKEVLKRA---MGGVL  134 (309)
T ss_dssp             SSTTCHHHHHHHHHHHH---TTSEE
T ss_pred             hcccccHHHHHHHHHhc---CCCEE
Confidence               1   1224666665   46665

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=98.50  E-value=3.9e-09  Score=92.65  Aligned_cols=87  Identities=17%  Similarity=0.159  Sum_probs=55.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHH-cC-CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-------C---
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEE-MG-IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-------N---   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~-~g-~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-------~---   65 (225)
                      +|++++++.|...+...+........ .+ ..++.++||+||||||||++|+   ..++.+|+.++.++       |   
T Consensus        18 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~~   97 (363)
T 3hws_A           18 IGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDV   97 (363)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccccH
Confidence            58889999888888643221111000 11 1267899999999999999997   44578888776544       1   


Q ss_pred             -CCccchhhhh----hcCCCCCC--cccc
Q psy7782          66 -SDKKDDKDKK----KKYEPPIP--TRVG   87 (225)
Q Consensus        66 -~~~~~~f~~a----~~~~p~ii--d~ig   87 (225)
                       ...+.+|..+    ....|||+  |.+.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~vl~lDEid  126 (363)
T 3hws_A           98 ENIIQKLLQKCDYDVQKAQRGIVYIDQID  126 (363)
T ss_dssp             THHHHHHHHHTTTCHHHHHHCEEEEECHH
T ss_pred             HHHHHHHHHHhhhhHHhcCCcEEEEeChh
Confidence             1224555554    44567776  5543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=98.44  E-value=1.4e-08  Score=104.27  Aligned_cols=82  Identities=18%  Similarity=0.148  Sum_probs=58.9

Q ss_pred             ChHHHHHHHHHHHHcccCC----------hHHHHH------cCCC----------CCce--eEEEcCCCCCCCccccccc
Q psy7782           2 SLDVQIQEIKESVELPLTH----------PEYYEE------MGIK----------PPKG--VILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~----------~~~~~~------~g~~----------~~~g--iLl~GppGtGKT~la~~~~   53 (225)
                      |++++|+.+.+.+.||+.+          ++.|+.      .|+.          +|+|  +|+|||||||||+||.+.+
T Consensus      1024 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~GKT~la~~~~ 1103 (1706)
T 3cmw_A         1024 AIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVI 1103 (1706)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCChHHHHHHHH
Confidence            7889999999999999944          667766      3433          5566  9999999999999996322


Q ss_pred             ------CCc--eeeccC------------------CC----C-CCccchhhhhhcCCCCCC
Q psy7782          54 ------GYH--YYCRGA------------------GS----N-SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        54 ------~~~--~~~~~~------------------~~----~-~~~~~~f~~a~~~~p~ii   83 (225)
                            |-+  |++...                  ++    + ..++.+|.+||+.+||++
T Consensus      1104 ~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i 1164 (1706)
T 3cmw_A         1104 AAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVI 1164 (1706)
T ss_dssp             HHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEE
T ss_pred             HHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEE
Confidence                  222  333221                  11    2 345678889999999997

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.41  E-value=2.4e-08  Score=83.89  Aligned_cols=62  Identities=19%  Similarity=0.205  Sum_probs=45.7

Q ss_pred             HHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC---C-------CCccchhhhhhcCCCCCC--ccc
Q psy7782          25 EEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS---N-------SDKKDDKDKKKKYEPPIP--TRV   86 (225)
Q Consensus        25 ~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~---~-------~~~~~~f~~a~~~~p~ii--d~i   86 (225)
                      ...+..++.++|||||||||||++|+   ...+.+|+.++.++   |       ..++.+|..|....|+++  |.+
T Consensus        57 ~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi  133 (272)
T 1d2n_A           57 KNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDI  133 (272)
T ss_dssp             HHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCH
T ss_pred             hccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEECh
Confidence            33445678899999999999999997   34568888776554   1       234678888887778876  554

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.33  E-value=1.1e-07  Score=87.58  Aligned_cols=64  Identities=23%  Similarity=0.368  Sum_probs=45.8

Q ss_pred             CChHHHHHHHHHHHHccc-CChHHHHHcCC---CCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPL-THPEYYEEMGI---KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l-~~~~~~~~~g~---~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.+++++.|.+++.... ..+..|...|.   .+++++||+||||||||++|+   ..+|.+++.++.++
T Consensus        42 iG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~  112 (516)
T 1sxj_A           42 CGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD  112 (516)
T ss_dssp             CSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCC
Confidence            578888888888886511 11222333333   256899999999999999997   44578899888776

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.29  E-value=7.8e-08  Score=81.45  Aligned_cols=64  Identities=16%  Similarity=0.174  Sum_probs=43.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHc-CCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEM-GIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~-g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.+++++.+...+..++..+.....+ +-..+.++|||||||||||++|+   ...+.+++.++.++
T Consensus        18 ~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~   85 (310)
T 1ofh_A           18 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK   85 (310)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchh
Confidence            588899999988886643322211111 01356899999999999999997   34467777665543

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=98.22  E-value=3.6e-07  Score=80.34  Aligned_cols=63  Identities=22%  Similarity=0.232  Sum_probs=44.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHH------------------HHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEY------------------YEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~------------------~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      +|++++++.|...+..++.....                  +.. ...++.++||+||||||||++|+   ..++.+|+.
T Consensus        24 iGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~-~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~  102 (376)
T 1um8_A           24 IGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEE-VELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAI  102 (376)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHH-TTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccc-cccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            68999999999888543322221                  111 12456789999999999999997   445678887


Q ss_pred             ccCCC
Q psy7782          60 RGAGS   64 (225)
Q Consensus        60 ~~~~~   64 (225)
                      ++.+.
T Consensus       103 ~~~~~  107 (376)
T 1um8_A          103 SDATS  107 (376)
T ss_dssp             EEGGG
T ss_pred             ecchh
Confidence            65443

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.21  E-value=6.8e-07  Score=76.33  Aligned_cols=75  Identities=21%  Similarity=0.269  Sum_probs=48.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCCCCCccchhhhhhc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGSNSDKKDDKDKKKK   77 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~~~~~~~~f~~a~~   77 (225)
                      +|.+++++.+.+.+...       ...+ ..+.++||+||||||||++|++   ..+.+++.++.+......+++.....
T Consensus        15 ig~~~~~~~l~~~l~~~-------~~~~-~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~   86 (324)
T 1hqc_A           15 IGQERLKQKLRVYLEAA-------KARK-EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILAN   86 (324)
T ss_dssp             CSCHHHHHHHHHHHHHH-------HHHC-SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHHHHHHHHTT
T ss_pred             hCHHHHHHHHHHHHHHH-------HccC-CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChHHHHHHHHH
Confidence            57788888888777651       1111 3567999999999999999973   35678877776654334444443333


Q ss_pred             --CCCCCC
Q psy7782          78 --YEPPIP   83 (225)
Q Consensus        78 --~~p~ii   83 (225)
                        ..++++
T Consensus        87 ~~~~~~~l   94 (324)
T 1hqc_A           87 SLEEGDIL   94 (324)
T ss_dssp             TCCTTCEE
T ss_pred             hccCCCEE
Confidence              345543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.16  E-value=7.8e-07  Score=85.30  Aligned_cols=70  Identities=20%  Similarity=0.214  Sum_probs=48.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---   64 (225)
                      ||.++.++.+.+.+..             ....++|||||||||||++|++.             .+.+++.++.+.   
T Consensus       183 iG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~  249 (758)
T 3pxi_A          183 IGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYR  249 (758)
T ss_dssp             CCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------
T ss_pred             cCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEeccccccc
Confidence            4666666666655433             34568999999999999999622             367777766533   


Q ss_pred             C---CCccchhhhhhcCCCCCC
Q psy7782          65 N---SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        65 ~---~~~~~~f~~a~~~~p~ii   83 (225)
                      |   ..++.+|..+....|+|+
T Consensus       250 G~~e~~l~~~~~~~~~~~~~iL  271 (758)
T 3pxi_A          250 GEFEDRLKKVMDEIRQAGNIIL  271 (758)
T ss_dssp             ---CTTHHHHHHHHHTCCCCEE
T ss_pred             chHHHHHHHHHHHHHhcCCEEE
Confidence            2   356899999999889886

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.15  E-value=8.9e-07  Score=80.50  Aligned_cols=70  Identities=20%  Similarity=0.214  Sum_probs=46.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---   64 (225)
                      ||-++.++.+.+.+..             ....++||+||||||||++|++.             .+.+|+.++.+.   
T Consensus       183 iGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~  249 (468)
T 3pxg_A          183 IGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYR  249 (468)
T ss_dssp             CCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------
T ss_pred             cCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcccc
Confidence            4556666655555432             24568999999999999999622             367788777652   


Q ss_pred             C---CCccchhhhhhcCCCCCC
Q psy7782          65 N---SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        65 ~---~~~~~~f~~a~~~~p~ii   83 (225)
                      |   ...+.+|..++...|+|+
T Consensus       250 g~~e~~~~~~~~~~~~~~~~iL  271 (468)
T 3pxg_A          250 GEFEDRLKKVMDEIRQAGNIIL  271 (468)
T ss_dssp             ---CTTHHHHHHHHHTCCCCEE
T ss_pred             chHHHHHHHHHHHHHhcCCeEE
Confidence            2   345788999988888875

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=98.13  E-value=3.4e-07  Score=84.80  Aligned_cols=80  Identities=20%  Similarity=0.238  Sum_probs=52.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---CCceeeccCCC-------------
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---GYHYYCRGAGS-------------   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~~~~~~~~~~~-------------   64 (225)
                      +|++++++.+.+.+......      ..+ +...+||+||||||||++|++++   +.++..++.+.             
T Consensus        84 ~G~~~vk~~i~~~~~l~~~~------~~~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~  156 (543)
T 3m6a_A           84 HGLEKVKERILEYLAVQKLT------KSL-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRT  156 (543)
T ss_dssp             SSCHHHHHHHHHHHHHHHHS------SSC-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC-------------
T ss_pred             ccHHHHHHHHHHHHHHHHhc------ccC-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHH
Confidence            48889999888777652211      111 45689999999999999998443   56777666544             


Q ss_pred             --C---CCccchhhhhhcCCCCCC-cccc
Q psy7782          65 --N---SDKKDDKDKKKKYEPPIP-TRVG   87 (225)
Q Consensus        65 --~---~~~~~~f~~a~~~~p~ii-d~ig   87 (225)
                        |   ..+...|..|....|.++ |.+.
T Consensus       157 ~ig~~~~~~~~~~~~a~~~~~vl~lDEid  185 (543)
T 3m6a_A          157 YVGAMPGRIIQGMKKAGKLNPVFLLDEID  185 (543)
T ss_dssp             -------CHHHHHHTTCSSSEEEEEEESS
T ss_pred             HhccCchHHHHHHHHhhccCCEEEEhhhh
Confidence              1   122456778877788443 4443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.11  E-value=4.7e-07  Score=82.00  Aligned_cols=56  Identities=23%  Similarity=0.343  Sum_probs=40.9

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeeccCCC-C-CCccchhhhhhcC----CCCCC--ccccc
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-N-SDKKDDKDKKKKY----EPPIP--TRVGK   88 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-~-~~~~~~f~~a~~~----~p~ii--d~igk   88 (225)
                      .++|||||||||||++|+   ..++.+|+.++... | ..++++|..|...    .++|+  |.+.+
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~  117 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIERARQNRNAGRRTILFVDEVHR  117 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCCHHHHHHHHHHHHHHHHTTCCEEEEEETTTC
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHHHHHhhhcCCCcEEEEeChhh
Confidence            689999999999999997   45678888887665 3 5567777776642    45554  55543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.10  E-value=7e-07  Score=68.07  Aligned_cols=65  Identities=17%  Similarity=0.084  Sum_probs=41.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccCC--ceeeccCCCC--CCccchhhhhh
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGY--HYYCRGAGSN--SDKKDDKDKKK   76 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~~--~~~~~~~~~~--~~~~~~f~~a~   76 (225)
                      +|.++.++.+.+.+...       .    ....++||+||||||||++|++++..  +|+.++.++-  ......|+.|.
T Consensus         7 iG~s~~~~~l~~~~~~~-------~----~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~~~~~~~~~~~~~~~~a~   75 (143)
T 3co5_A            7 LGNSAAIQEMNREVEAA-------A----KRTSPVFLTGEAGSPFETVARYFHKNGTPWVSPARVEYLIDMPMELLQKAE   75 (143)
T ss_dssp             -CCCHHHHHHHHHHHHH-------H----TCSSCEEEEEETTCCHHHHHGGGCCTTSCEECCSSTTHHHHCHHHHHHHTT
T ss_pred             eeCCHHHHHHHHHHHHH-------h----CCCCcEEEECCCCccHHHHHHHHHHhCCCeEEechhhCChHhhhhHHHhCC
Confidence            35556666666666541       1    23468999999999999999855442  6777776652  22345565554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.07  E-value=1.5e-06  Score=74.95  Aligned_cols=56  Identities=13%  Similarity=0.129  Sum_probs=42.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.+++++.+..++....       . .-.++.++||+||||||||++|+   ...+.+|+.++.+.
T Consensus        32 iG~~~~~~~l~~~l~~~~-------~-~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~   90 (338)
T 3pfi_A           32 IGQESIKKNLNVFIAAAK-------K-RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPM   90 (338)
T ss_dssp             CSCHHHHHHHHHHHHHHH-------H-TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CChHHHHHHHHHHHHHHH-------h-cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchh
Confidence            578888888888876621       1 12456789999999999999997   44578888777655

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.07  E-value=1.7e-06  Score=65.93  Aligned_cols=71  Identities=14%  Similarity=0.107  Sum_probs=43.9

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc------cCCceeeccCCCC---CCccchh
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGSN---SDKKDDK   72 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~~---~~~~~~f   72 (225)
                      |-+...+.+.+.+..          . ......+||+||||||||++|+++      .+.+|+ ++.+.-   ......|
T Consensus         5 G~s~~~~~~~~~~~~----------~-a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~~~~~~~   72 (145)
T 3n70_A            5 GRSEWINQYRRRLQQ----------L-SETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAPQLNDFI   72 (145)
T ss_dssp             CSSHHHHHHHHHHHH----------H-TTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSSCHHHHH
T ss_pred             eCCHHHHHHHHHHHH----------H-hCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcchhhhcHH
Confidence            445555555555543          1 134568999999999999999733      256788 766653   2234555


Q ss_pred             hhhhcCCCCCC--cccc
Q psy7782          73 DKKKKYEPPIP--TRVG   87 (225)
Q Consensus        73 ~~a~~~~p~ii--d~ig   87 (225)
                      ..|.   .+++  |.++
T Consensus        73 ~~a~---~g~l~ldei~   86 (145)
T 3n70_A           73 ALAQ---GGTLVLSHPE   86 (145)
T ss_dssp             HHHT---TSCEEEECGG
T ss_pred             HHcC---CcEEEEcChH
Confidence            5553   3443  6664

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.04  E-value=1.1e-06  Score=76.40  Aligned_cols=56  Identities=20%  Similarity=0.219  Sum_probs=37.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---C--CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---G--YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---~--~~~~~~~~~~   64 (225)
                      +|.+++++.+......        ...+..+++++|||||||||||++|++.+   +  .+|+.+....
T Consensus        47 vG~~~~~~~l~~l~~~--------~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~  107 (368)
T 3uk6_A           47 VGQLAARRAAGVVLEM--------IREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSE  107 (368)
T ss_dssp             ESCHHHHHHHHHHHHH--------HHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGG
T ss_pred             cChHHHHHHHHHHHHH--------HHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchh
Confidence            4667777776655543        12244557899999999999999997333   2  3665555433

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.91  E-value=3e-06  Score=65.76  Aligned_cols=20  Identities=35%  Similarity=0.574  Sum_probs=18.1

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .+.++||+||||||||++|+
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~   61 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVE   61 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHH
Confidence            45789999999999999986

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.88  E-value=4.2e-06  Score=71.70  Aligned_cols=62  Identities=16%  Similarity=0.139  Sum_probs=44.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC--CCccchhhh
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN--SDKKDDKDK   74 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~--~~~~~~f~~   74 (225)
                      +|.+++++.|.+++..           + ..+..+|++||||||||++|+   ...+.+++.++.++.  ..+++.+..
T Consensus        29 vg~~~~~~~l~~~l~~-----------~-~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~~~~i~~~~~~   95 (324)
T 3u61_B           29 ILPAFDKETFKSITSK-----------G-KIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTN   95 (324)
T ss_dssp             CCCHHHHHHHHHHHHT-----------T-CCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCCHHHHHTHHHH
T ss_pred             hCcHHHHHHHHHHHHc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccCHHHHHHHHHH
Confidence            4677888888777762           2 355778999999999999997   445788998887662  333444443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.86  E-value=7.7e-06  Score=78.37  Aligned_cols=79  Identities=16%  Similarity=0.222  Sum_probs=48.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC----CCceeEEEcCCCCCCCccccccc------CCceeeccCCCC-----
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK----PPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGSN-----   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~----~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~~-----   65 (225)
                      +|.+++++.+.+.+...        ..|..    +..++||+||||||||++|++++      +.+|+.++.++-     
T Consensus       494 iGq~~a~~~l~~~i~~~--------~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~  565 (758)
T 3pxi_A          494 IGQDEAVVAVAKAVRRA--------RAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHS  565 (758)
T ss_dssp             CSCHHHHHHHHHHHHHH--------TTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCC
T ss_pred             cChHHHHHHHHHHHHHH--------HcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccc
Confidence            47777887777777651        12222    22369999999999999997332      467887776661     


Q ss_pred             CCccchhhhhhcCCCCCC--cccc
Q psy7782          66 SDKKDDKDKKKKYEPPIP--TRVG   87 (225)
Q Consensus        66 ~~~~~~f~~a~~~~p~ii--d~ig   87 (225)
                      .+...++...+...++++  |.++
T Consensus       566 ~~~~~l~~~~~~~~~~vl~lDEi~  589 (758)
T 3pxi_A          566 TSGGQLTEKVRRKPYSVVLLDAIE  589 (758)
T ss_dssp             CC---CHHHHHHCSSSEEEEECGG
T ss_pred             cccchhhHHHHhCCCeEEEEeCcc
Confidence            112244444455555665  5443

>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=97.84  E-value=2.2e-06  Score=67.32  Aligned_cols=27  Identities=33%  Similarity=0.511  Sum_probs=21.5

Q ss_pred             cCCCCCceeEEEcCCCCCCCccccccc
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +.+....+++|+||||||||+++++++
T Consensus        33 ~~~~~g~~~~l~G~~G~GKTtL~~~i~   59 (180)
T 3ec2_A           33 FNPEEGKGLTFVGSPGVGKTHLAVATL   59 (180)
T ss_dssp             CCGGGCCEEEECCSSSSSHHHHHHHHH
T ss_pred             ccccCCCEEEEECCCCCCHHHHHHHHH
Confidence            334456899999999999999997443

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.80  E-value=4.5e-06  Score=71.76  Aligned_cols=31  Identities=23%  Similarity=0.337  Sum_probs=24.6

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeeccCC
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRGAG   63 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~~~   63 (225)
                      .++|||||||||||++|+   ...+.+++.++..
T Consensus        47 ~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~   80 (331)
T 2r44_A           47 GHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFT   80 (331)
T ss_dssp             CCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecC
Confidence            699999999999999997   3456677666543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.79  E-value=4.4e-06  Score=64.78  Aligned_cols=20  Identities=40%  Similarity=0.597  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ...++||+||||||||++|+
T Consensus        42 ~~~~vll~G~~G~GKT~la~   61 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVE   61 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHH
Confidence            45789999999999999986

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.75  E-value=8.3e-06  Score=64.67  Aligned_cols=51  Identities=29%  Similarity=0.339  Sum_probs=34.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc--------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~~   64 (225)
                      +|.+++++.+.+++..           +  ...+++|+||||||||++|++.+        ...++.++.+.
T Consensus        20 ~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~   78 (226)
T 2chg_A           20 VGQDEVIQRLKGYVER-----------K--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD   78 (226)
T ss_dssp             CSCHHHHHHHHHHHHT-----------T--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTC
T ss_pred             cCcHHHHHHHHHHHhC-----------C--CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccc
Confidence            4667777777776654           1  22359999999999999996332        24466665544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.74  E-value=9.5e-06  Score=68.75  Aligned_cols=49  Identities=18%  Similarity=0.293  Sum_probs=31.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +|.+.+++.+...+......   . ...-.+...+||+||||||||++|++++
T Consensus        20 ~G~~~~~~~l~~~i~~~~~~---~-~~~~~~~~~~ll~G~~GtGKt~la~~la   68 (311)
T 4fcw_A           20 VGQDEAIRAVADAIRRARAG---L-KDPNRPIGSFLFLGPTGVGKTELAKTLA   68 (311)
T ss_dssp             CSCHHHHHHHHHHHHHHHHT---C-SCTTSCSEEEEEESCSSSSHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhcC---C-CCCCCCceEEEEECCCCcCHHHHHHHHH
Confidence            47777777777777552100   0 0011234579999999999999997433

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.71  E-value=3.6e-06  Score=68.65  Aligned_cols=27  Identities=22%  Similarity=0.337  Sum_probs=21.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +++..+++|||||||||||++|.+++.
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHH
Confidence            355567899999999999999865543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=97.71  E-value=8.2e-06  Score=70.21  Aligned_cols=19  Identities=37%  Similarity=0.758  Sum_probs=17.1

Q ss_pred             ceeEEEcCCCCCCCccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~   51 (225)
                      .++|||||||||||++|++
T Consensus        46 ~~vLl~G~~GtGKT~la~~   64 (350)
T 1g8p_A           46 GGVLVFGDRGTGKSTAVRA   64 (350)
T ss_dssp             CCEEEECCGGGCTTHHHHH
T ss_pred             ceEEEECCCCccHHHHHHH
Confidence            4799999999999999973

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.67  E-value=1.3e-05  Score=69.80  Aligned_cols=42  Identities=14%  Similarity=0.124  Sum_probs=30.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.++.++.+.+.+...+.        + ..+++++|+||||||||++|++
T Consensus        23 ~gr~~~~~~l~~~l~~~~~--------~-~~~~~vll~G~~G~GKT~la~~   64 (384)
T 2qby_B           23 PFREDILRDAAIAIRYFVK--------N-EVKFSNLFLGLTGTGKTFVSKY   64 (384)
T ss_dssp             TTCHHHHHHHHHHHHHHHT--------T-CCCCEEEEEECTTSSHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHH
Confidence            4667777777776654221        1 3457999999999999999973

>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=97.64  E-value=2.2e-05  Score=63.33  Aligned_cols=34  Identities=21%  Similarity=0.313  Sum_probs=24.8

Q ss_pred             CCceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      ...+++|+||||||||++|++.+      +.+++.++..+
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            46799999999999999996332      35555555544

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.62  E-value=1.1e-05  Score=78.27  Aligned_cols=53  Identities=23%  Similarity=0.201  Sum_probs=36.3

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC---CC--------CccchhhhhhcC-CCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS---NS--------DKKDDKDKKKKY-EPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~---~~--------~~~~~f~~a~~~-~p~ii   83 (225)
                      ...++||+||||||||++|+..             .+.+++.++.+.   |.        ..+.+|..+... .|+|+
T Consensus       190 ~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL  267 (854)
T 1qvr_A          190 TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVIL  267 (854)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHHHTTCSSEEE
T ss_pred             CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEE
Confidence            4568999999999999998622             277888776655   11        235677777765 67775

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.61  E-value=1.8e-05  Score=63.35  Aligned_cols=39  Identities=18%  Similarity=0.308  Sum_probs=27.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.+++++.|.+.+..           + ..+..++|+||||||||+++++
T Consensus        26 ~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~   64 (250)
T 1njg_A           26 VGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARL   64 (250)
T ss_dssp             CSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHH
Confidence            3556666666666543           1 2345899999999999999963

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.61  E-value=1.4e-05  Score=76.36  Aligned_cols=53  Identities=21%  Similarity=0.166  Sum_probs=36.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc-------------cCCceeeccCCC--------C---CCccchhhhhhcCCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA-------------LGYHYYCRGAGS--------N---SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~-------------~~~~~~~~~~~~--------~---~~~~~~f~~a~~~~p~ii   83 (225)
                      ...++||+||||||||++|++.             .+..++.+..+.        |   ...+.+|+.++...++|+
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL  282 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSIL  282 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEE
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHHHHHHHHHHHHHhcCCeEE
Confidence            5678999999999999998622             255566655443        1   123567777777778775

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.61  E-value=1.8e-05  Score=65.89  Aligned_cols=34  Identities=26%  Similarity=0.265  Sum_probs=25.7

Q ss_pred             CCceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      ...++||+||||||||++|++++      +.+|+.++.+.
T Consensus        28 ~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~   67 (265)
T 2bjv_A           28 LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAA   67 (265)
T ss_dssp             SCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGG
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCC
Confidence            34799999999999999997332      35777776544

>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=97.60  E-value=1.2e-05  Score=69.66  Aligned_cols=24  Identities=38%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++..++|+||||||||++|+.+++
T Consensus        50 ~~~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           50 VLDHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            457899999999999999985544

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=97.58  E-value=1e-05  Score=68.47  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++.++++||||||||||++|.+++.
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHh
Confidence            3457899999999999999987765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.58  E-value=1.8e-05  Score=68.59  Aligned_cols=55  Identities=24%  Similarity=0.271  Sum_probs=36.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc------------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL------------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~------------~~~~~~~~~~~   64 (225)
                      +|.++.++.+..++...+.         ...+.+++|+||||||||+++++.+            +.+++.++...
T Consensus        22 ~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (387)
T 2v1u_A           22 PHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARH   88 (387)
T ss_dssp             TTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTT
T ss_pred             CCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCc
Confidence            3556666666665543111         1456799999999999999996322            66777776544

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.57  E-value=2.6e-05  Score=74.59  Aligned_cols=56  Identities=25%  Similarity=0.427  Sum_probs=37.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCC----CCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIK----PPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~----~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.+++++.+...+..        ...|+.    +..++||+||||||||++|+   ..++.+|+.++.++
T Consensus       461 ~g~~~~~~~l~~~i~~--------~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~  523 (758)
T 1r6b_X          461 FGQDKAIEALTEAIKM--------ARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSE  523 (758)
T ss_dssp             CSCHHHHHHHHHHHHH--------HHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGG
T ss_pred             cCHHHHHHHHHHHHHH--------HhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechh
Confidence            3566666666665543        233432    33479999999999999997   33467777665444

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.56  E-value=2.1e-05  Score=66.69  Aligned_cols=51  Identities=22%  Similarity=0.353  Sum_probs=35.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC--------CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG--------YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~--------~~~~~~~~~~   64 (225)
                      +|.+++++.|..++..           +  ...++|||||||||||++|++.+.        ..++.++.++
T Consensus        28 ~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~   86 (327)
T 1iqp_A           28 VGQEHIVKRLKHYVKT-----------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD   86 (327)
T ss_dssp             CSCHHHHHHHHHHHHH-----------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC
T ss_pred             hCCHHHHHHHHHHHHc-----------C--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccc
Confidence            4777888877776643           2  223599999999999999974332        2356666555

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.53  E-value=2.4e-05  Score=71.80  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=19.0

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      ..++||+||||||||++|++.+
T Consensus        41 ~~~VLL~GpPGtGKT~LAraLa   62 (500)
T 3nbx_X           41 GESVFLLGPPGIAKSLIARRLK   62 (500)
T ss_dssp             TCEEEEECCSSSSHHHHHHHGG
T ss_pred             CCeeEeecCchHHHHHHHHHHH
Confidence            4699999999999999997444

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.52  E-value=8.8e-06  Score=70.00  Aligned_cols=32  Identities=31%  Similarity=0.475  Sum_probs=23.8

Q ss_pred             ceeEEEcCCCCCCCcccccccC---------CceeeccCCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG---------YHYYCRGAGS   64 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~---------~~~~~~~~~~   64 (225)
                      .++|||||||||||++|++.++         ..++.++.++
T Consensus        59 ~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~   99 (353)
T 1sxj_D           59 PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD   99 (353)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc
Confidence            3599999999999999974433         3466666655

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.52  E-value=2.3e-05  Score=67.81  Aligned_cols=51  Identities=29%  Similarity=0.457  Sum_probs=33.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC--------CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG--------YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~--------~~~~~~~~~~   64 (225)
                      +|.+++++.|...+..           | ..+ ++|||||||||||++|++.++        ..+..++.++
T Consensus        28 ~g~~~~~~~L~~~i~~-----------g-~~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~   86 (340)
T 1sxj_C           28 YGQNEVITTVRKFVDE-----------G-KLP-HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD   86 (340)
T ss_dssp             CSCHHHHHHHHHHHHT-----------T-CCC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTS
T ss_pred             cCcHHHHHHHHHHHhc-----------C-CCc-eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcc
Confidence            3566677766665543           2 122 399999999999999975444        2355565554

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.52  E-value=3.4e-05  Score=74.98  Aligned_cols=56  Identities=18%  Similarity=0.297  Sum_probs=36.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC----CCCceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI----KPPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~----~~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      +|.+++++.+...+..        ...|+    .+..++||+||||||||++|++++      +.+|+.++.++
T Consensus       561 iG~~~a~~~l~~~i~~--------~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~  626 (854)
T 1qvr_A          561 VGQDEAIRAVADAIRR--------ARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTE  626 (854)
T ss_dssp             CSCHHHHHHHHHHHHH--------HGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTT
T ss_pred             CCcHHHHHHHHHHHHH--------HhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechh
Confidence            3556666666666543        11222    233589999999999999997333      46777776554

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.47  E-value=4.2e-05  Score=65.53  Aligned_cols=53  Identities=15%  Similarity=0.204  Sum_probs=35.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc------cCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA------LGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~------~~~~~~~~~~~~   64 (225)
                      +|.+...+.+.+.+...           .....++||+||||||||++|+++      .+.+|+.++.+.
T Consensus         5 ig~s~~~~~~~~~~~~~-----------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~   63 (304)
T 1ojl_A            5 IGSSPAMQHLLNEIAMV-----------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAA   63 (304)
T ss_dssp             CCCSHHHHHHHHHHHHH-----------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSS
T ss_pred             EECCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCC
Confidence            34455555555555441           134578999999999999999733      356787776544

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.45  E-value=1.8e-05  Score=68.63  Aligned_cols=21  Identities=10%  Similarity=-0.050  Sum_probs=19.1

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+++||||||||||++++
T Consensus        43 ~~~~~lli~GpPGTGKT~~v~   63 (318)
T 3te6_A           43 SQNKLFYITNADDSTKFQLVN   63 (318)
T ss_dssp             TCCCEEEEECCCSHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHH
Confidence            467899999999999999986

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.43  E-value=1.7e-05  Score=63.14  Aligned_cols=20  Identities=40%  Similarity=0.559  Sum_probs=18.0

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      +++++|+||||||||++|++
T Consensus        54 ~~~~~l~G~~GtGKT~la~~   73 (202)
T 2w58_A           54 MKGLYLHGSFGVGKTYLLAA   73 (202)
T ss_dssp             CCEEEEECSTTSSHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHH
Confidence            37999999999999999963

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.40  E-value=2.5e-05  Score=66.98  Aligned_cols=34  Identities=32%  Similarity=0.465  Sum_probs=26.6

Q ss_pred             CCceeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      .+.+++||||||||||++|++++      +.+++.++..+
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~   75 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADD   75 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHH
Confidence            45799999999999999997433      67777776544

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.39  E-value=4.9e-05  Score=65.78  Aligned_cols=38  Identities=18%  Similarity=0.336  Sum_probs=28.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +|.+++++.|...+..           + ..+..+||+||||||||++|+
T Consensus        19 vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~   56 (373)
T 1jr3_A           19 VGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIAR   56 (373)
T ss_dssp             CSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHH
Confidence            4677777777776643           1 234689999999999999986

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.38  E-value=3e-05  Score=65.48  Aligned_cols=51  Identities=29%  Similarity=0.339  Sum_probs=32.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc--------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~~   64 (225)
                      +|.+++++.|...+..           +  ...++|||||||||||++|++.+        +.+++.++.++
T Consensus        20 ~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   78 (319)
T 2chq_A           20 VGQDEVIQRLKGYVER-----------K--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD   78 (319)
T ss_dssp             CSCHHHHHHHHTTTTT-----------T--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTS
T ss_pred             hCCHHHHHHHHHHHhC-----------C--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCcc
Confidence            3566666666554432           2  12249999999999999996332        24566666655

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=97.32  E-value=2.5e-05  Score=73.09  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.6

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..++||+||||||||++|++++.
T Consensus       327 ~~~vLL~GppGtGKT~LAr~la~  349 (595)
T 3f9v_A          327 DIHILIIGDPGTAKSQMLQFISR  349 (595)
T ss_dssp             SCCEEEEESSCCTHHHHHHSSST
T ss_pred             CcceEEECCCchHHHHHHHHHHH
Confidence            34899999999999999985554

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.30  E-value=6.4e-05  Score=63.54  Aligned_cols=51  Identities=22%  Similarity=0.272  Sum_probs=33.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc--------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~~   64 (225)
                      +|.+++++.|...+..           + ..+. +|||||||||||++|++.+        +.+++.++.++
T Consensus        24 ~g~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   82 (323)
T 1sxj_B           24 VGNKETIDRLQQIAKD-----------G-NMPH-MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD   82 (323)
T ss_dssp             CSCTHHHHHHHHHHHS-----------C-CCCC-EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS
T ss_pred             HCCHHHHHHHHHHHHc-----------C-CCCe-EEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcc
Confidence            3566677776666543           2 2233 9999999999999996332        24466666655

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.29  E-value=6e-05  Score=65.05  Aligned_cols=52  Identities=23%  Similarity=0.314  Sum_probs=34.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---------CCceeecc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---------GYHYYCRG   61 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---------~~~~~~~~   61 (225)
                      +|-++.++.|.+.+...+.        + ..+..++|+||||||||+++++.+         +..++.++
T Consensus        23 ~gr~~e~~~l~~~l~~~~~--------~-~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~   83 (386)
T 2qby_A           23 PHREDQIRKIASILAPLYR--------E-EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN   83 (386)
T ss_dssp             TTCHHHHHHHHHSSGGGGG--------T-CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE
T ss_pred             CChHHHHHHHHHHHHHHHc--------C-CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE
Confidence            3556666666665543111        1 346789999999999999997333         55666554

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.28  E-value=8.1e-05  Score=64.57  Aligned_cols=55  Identities=20%  Similarity=0.187  Sum_probs=35.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCc--eeEEEcCCCCCCCccccccc-------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPK--GVILYGPPGTGKTLPFSPAL-------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~--giLl~GppGtGKT~la~~~~-------~~~~~~~~~~~   64 (225)
                      +|-++..+.|.+++...+       . + ..+.  .++|+||||||||+++++.+       +..++.++...
T Consensus        20 ~gr~~~~~~l~~~l~~~~-------~-~-~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~   83 (389)
T 1fnn_A           20 PHREQQLQQLDILLGNWL-------R-N-PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI   83 (389)
T ss_dssp             TTCHHHHHHHHHHHHHHH-------H-S-TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT
T ss_pred             CChHHHHHHHHHHHHHHH-------c-C-CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCcc
Confidence            356667777777665411       1 1 2233  89999999999999996332       56677666444

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.26  E-value=4.4e-05  Score=65.86  Aligned_cols=20  Identities=45%  Similarity=0.777  Sum_probs=17.4

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      ++|+||||||||++++..++
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999975444

>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=97.25  E-value=4.1e-05  Score=67.79  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=23.8

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +++.+...++|+|||||||||+++..++
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            4778888999999999999999975543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.24  E-value=6.1e-05  Score=64.70  Aligned_cols=19  Identities=42%  Similarity=0.773  Sum_probs=17.7

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ..+++||||||||||++|.
T Consensus       152 ~~~lll~G~~GtGKT~La~  170 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLA  170 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            5899999999999999986

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.16  E-value=0.0001  Score=77.03  Aligned_cols=69  Identities=14%  Similarity=0.089  Sum_probs=46.7

Q ss_pred             CChHHHHHcC---CCCCceeEEEcCCCCCCCcccc------cccC--CceeeccCCC--------C--------------
Q psy7782          19 THPEYYEEMG---IKPPKGVILYGPPGTGKTLPFS------PALG--YHYYCRGAGS--------N--------------   65 (225)
Q Consensus        19 ~~~~~~~~~g---~~~~~giLl~GppGtGKT~la~------~~~~--~~~~~~~~~~--------~--------------   65 (225)
                      ..+++-.-+|   +++.++++||||||||||+||.      ...|  +-|++....-        |              
T Consensus      1411 G~~~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~ 1490 (2050)
T 3cmu_A         1411 GSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTG 1490 (2050)
T ss_dssp             SCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSH
T ss_pred             CCHHHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChH
Confidence            4566666666   8889999999999999999984      2222  2233322110        1              


Q ss_pred             -CCccchhhhhhcCCCCCC--cccc
Q psy7782          66 -SDKKDDKDKKKKYEPPIP--TRVG   87 (225)
Q Consensus        66 -~~~~~~f~~a~~~~p~ii--d~ig   87 (225)
                       ...+.++..++..+|+++  |.++
T Consensus      1491 E~~l~~~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1491 EQALEICDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHHHHHHHHTCCSEEEESCGG
T ss_pred             HHHHHHHHHHHhcCCCCEEEEcChh
Confidence             234567778889999986  8873

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=96.99  E-value=0.00025  Score=61.26  Aligned_cols=21  Identities=14%  Similarity=0.339  Sum_probs=18.4

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.++|||||||||||++|+
T Consensus        22 ~~~~a~L~~G~~G~GKt~~a~   42 (334)
T 1a5t_A           22 RGHHALLIQALPGMGDDALIY   42 (334)
T ss_dssp             CCCSEEEEECCTTSCHHHHHH
T ss_pred             CcceeEEEECCCCchHHHHHH
Confidence            456789999999999999985

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.99  E-value=0.00013  Score=58.11  Aligned_cols=32  Identities=22%  Similarity=0.122  Sum_probs=24.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      +.+.+-|+|.|||||||||+++..   .|.++++.
T Consensus        22 ~~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           22 SNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             cCCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            445668999999999999999844   47777754

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.96  E-value=8e-05  Score=67.06  Aligned_cols=33  Identities=18%  Similarity=0.197  Sum_probs=25.0

Q ss_pred             CceeEEEcCCCCCCCccccccc--------CCceeeccCCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL--------GYHYYCRGAGS   64 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~--------~~~~~~~~~~~   64 (225)
                      +.+++||||||||||++|++++        +.+++.++..+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~  170 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            5789999999999999997443        55666655443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.95  E-value=0.00014  Score=55.84  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=19.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +...++|+||+|+|||+++++.++
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            557899999999999999974443

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.81  E-value=0.0002  Score=55.87  Aligned_cols=29  Identities=28%  Similarity=0.174  Sum_probs=23.7

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      ++.|+|.||||||||++++.   ..|.++++.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            46799999999999999973   357787754

>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=96.77  E-value=0.00026  Score=55.16  Aligned_cols=30  Identities=30%  Similarity=0.393  Sum_probs=23.9

Q ss_pred             CCceeEEEcCCCCCCCccccccc---CCceeec
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL---GYHYYCR   60 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~---~~~~~~~   60 (225)
                      .++-|+|.||||+|||++++..+   |..+++.
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            34679999999999999998444   7777754

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.75  E-value=0.00022  Score=61.16  Aligned_cols=63  Identities=11%  Similarity=-0.023  Sum_probs=40.2

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc---------CCceeeccCCC---C-CCc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL---------GYHYYCRGAGS---N-SDK   68 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~---------~~~~~~~~~~~---~-~~~   68 (225)
                      |.+++.+.|...+..           |-  ...+|||||||||||++|.+.+         ..+++.++..+   + ..+
T Consensus         1 g~~~~~~~L~~~i~~-----------~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~i   67 (305)
T 2gno_A            1 GAKDQLETLKRIIEK-----------SE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDI   67 (305)
T ss_dssp             ---CHHHHHHHHHHT-----------CS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHH
T ss_pred             ChHHHHHHHHHHHHC-----------CC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHH
Confidence            456666666666654           21  3589999999999999986332         35677776543   2 235


Q ss_pred             cchhhhhhc
Q psy7782          69 KDDKDKKKK   77 (225)
Q Consensus        69 ~~~f~~a~~   77 (225)
                      |++++.|..
T Consensus        68 r~li~~~~~   76 (305)
T 2gno_A           68 RTIKDFLNY   76 (305)
T ss_dssp             HHHHHHHTS
T ss_pred             HHHHHHHhh
Confidence            777776653

>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=96.74  E-value=0.00027  Score=55.30  Aligned_cols=31  Identities=29%  Similarity=0.401  Sum_probs=23.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      +..+.-|+|.||||+||||+++..   .|.++++
T Consensus         2 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             CSCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            345667899999999999999733   4666664

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.70  E-value=0.00038  Score=64.99  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=19.0

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..++|+||||||||++|+++++
T Consensus        61 ~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           61 RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHhc
Confidence            5899999999999999975444

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.68  E-value=0.00022  Score=62.61  Aligned_cols=65  Identities=17%  Similarity=0.187  Sum_probs=39.8

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceeeccCCC-C-CCccchhhhh
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYCRGAGS-N-SDKKDDKDKK   75 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~~~~~~-~-~~~~~~f~~a   75 (225)
                      .++++.+.+.+.+...+..       |  ....++|.||||+|||++++.+   .+.+|+.++... | ..+|+.+..|
T Consensus         3 ~~~~L~~~il~~l~~~i~~-------g--~~~~i~l~G~~G~GKTTl~~~la~~l~~~f~~l~a~~~g~~~ir~~~~~a   72 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIED-------N--YRVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPM   72 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTT-------C--SCEEEEEECCTTSSHHHHHHHHHHHHHHHHHHHHHHSTTCCCEECTTSCC
T ss_pred             cHHHHHHHHHHHHHHHhcc-------C--CeeEEEEECCCCCcHHHHHHHHHHHhCCCeeeecccccchHHHHHHHHhh
Confidence            4566666666666542211       1  2346999999999999999744   446776554443 2 4455555443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.65  E-value=0.00083  Score=56.96  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=19.2

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+.-++|.||||+||||+|+..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L   53 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAI   53 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHH
Confidence            34567899999999999999744

>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=96.64  E-value=0.00027  Score=55.34  Aligned_cols=27  Identities=22%  Similarity=0.233  Sum_probs=22.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||||+||||+++..++.
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            455566889999999999999866664

>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=96.64  E-value=0.00041  Score=53.67  Aligned_cols=28  Identities=21%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             CceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      ++-|+|.||||+||||+++..   .+.+++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~   33 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLA   33 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEE
Confidence            356899999999999999743   3456654

>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=96.58  E-value=0.00038  Score=54.69  Aligned_cols=29  Identities=28%  Similarity=0.359  Sum_probs=22.8

Q ss_pred             CceeEEEcCCCCCCCcccccc----cCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA----LGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~----~~~~~~~~   60 (225)
                      +.-|+|.||||||||++++..    .|.++++.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            456899999999999999732    47777754

>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA, ATP-binding, nucleotide-binding; 1.60A {Rhodococcus erythropolis} PDB: 3fp9_A

Probab=96.48  E-value=0.0028  Score=48.64  Aligned_cols=58  Identities=26%  Similarity=0.368  Sum_probs=46.2

Q ss_pred             eeeEEEEEecC-CeEEEEccCCCeEEEeecCCCCcC------------------CCCCCCeEEecCCcceeeeccCC
Q psy7782         161 SVGTLEEIIDD-NHAIVSTSVGSEHYVSILSFVDKD------------------QLEPGCSVLLNHKVHAVVGVLSD  218 (225)
Q Consensus       161 ~vg~v~e~~d~-~~~iV~~~~g~~~~v~v~~~vd~~------------------~L~pG~~V~ln~~~~~Iv~vLp~  218 (225)
                      .|.++.|++++ ++++|...+|-+.+|..++.+...                  .|+||++|.++..+=-..+.+|.
T Consensus        69 ev~tv~EvL~d~~RalV~~~~deerVV~lA~~L~~~~~~~~~~~~~~~~~~~~~~lr~GDsllvD~rag~A~E~ipk  145 (153)
T 2wfw_A           69 EISTLREVLDDGLRALVVGHADEERIVWLAAPLAAVFADPEADIIAYDADSPTRKLRPGDSLLVDTKAGYAFERIPK  145 (153)
T ss_dssp             EEEEEEEECTTSSEEEEECTTCCEEEEEECHHHHHHCCCCC-----------------CCEEEEETTTTEEEEEECS
T ss_pred             CEEEEEEEeCCCCeEEEEccCCcEEEEEeehhhhcccccccccccccccccccCCCCCCCEEEEcCCCceEEEEcCc
Confidence            57889999999 899998889999999999887543                  89999999999977777777775

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.47  E-value=0.0003  Score=61.04  Aligned_cols=25  Identities=24%  Similarity=0.142  Sum_probs=20.1

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      |+.+.+.++|+||||||||+||.+.
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlql  143 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHAL  143 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHH
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHH
Confidence            4555566799999999999999643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.41  E-value=0.0007  Score=52.08  Aligned_cols=27  Identities=26%  Similarity=0.480  Sum_probs=21.0

Q ss_pred             ceeEEEcCCCCCCCccccccc---CCceee
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL---GYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~---~~~~~~   59 (225)
                      .-+.|.|||||||||+++..+   +.++++
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            468999999999999998443   555554

>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=96.37  E-value=0.00054  Score=52.42  Aligned_cols=28  Identities=25%  Similarity=0.159  Sum_probs=21.2

Q ss_pred             eeEEEcCCCCCCCcccccc---cCCceeecc
Q psy7782          34 GVILYGPPGTGKTLPFSPA---LGYHYYCRG   61 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~---~~~~~~~~~   61 (225)
                      -|+|.||||+||||+++..   .+.++++..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            4789999999999999743   466665443

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.34  E-value=0.00055  Score=53.32  Aligned_cols=28  Identities=36%  Similarity=0.647  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCCCCccccccc---CCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL---GYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~---~~~~~~~   60 (225)
                      .-|+|.||||+||||+++..+   |.++++.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            458899999999999997443   6776654

>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=96.32  E-value=0.00064  Score=51.77  Aligned_cols=27  Identities=22%  Similarity=0.269  Sum_probs=20.7

Q ss_pred             eeEEEcCCCCCCCcccccc--cCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSPA--LGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~--~~~~~~~~   60 (225)
                      -|+|.||||+||||+|+..  .|.++++.
T Consensus         3 ~I~l~G~~GsGKsT~a~~L~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLLKERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHCCCcEEEH
Confidence            4789999999999999843  45666553

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.28  E-value=0.00079  Score=55.02  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             CCCCceeEEEcCCCCCCCccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +..++-|+|.||||+||+|.|+.
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~   48 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEK   48 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHH
Confidence            45567789999999999999973

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=96.28  E-value=0.0011  Score=71.27  Aligned_cols=35  Identities=31%  Similarity=0.579  Sum_probs=26.4

Q ss_pred             CCceeEEEcCCCCCCCcccc----cccCCceeeccCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS----PALGYHYYCRGAGSN   65 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~----~~~~~~~~~~~~~~~   65 (225)
                      ..+++||+||||||||++|+    ...+..++.++.+..
T Consensus      1266 ~~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ 1304 (2695)
T 4akg_A         1266 SKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKD 1304 (2695)
T ss_dssp             HTCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecC
Confidence            45899999999999999994    334556666666553

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.25  E-value=0.00082  Score=51.77  Aligned_cols=20  Identities=30%  Similarity=0.359  Sum_probs=17.2

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      .-|+|.||||+||||+|+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L   22 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREF   22 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHH
Confidence            46899999999999999743

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.25  E-value=0.00071  Score=52.43  Aligned_cols=27  Identities=19%  Similarity=0.315  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      -|+|.||||+||||+|+.   ..|.++++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            589999999999999973   356777654

>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=96.24  E-value=0.00074  Score=52.64  Aligned_cols=27  Identities=33%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      -|+|.|+||+|||++|+.   ..|.++++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDT   33 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeC
Confidence            489999999999999973   357777754

>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=96.17  E-value=0.00097  Score=54.74  Aligned_cols=27  Identities=26%  Similarity=0.472  Sum_probs=22.7

Q ss_pred             CceeEEEcCCCCCCCccccccc---CCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL---GYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~---~~~~~   58 (225)
                      +.-+.|.||||+||||+++.++   |...+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            4678899999999999999877   76554

>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=96.16  E-value=0.001  Score=52.71  Aligned_cols=29  Identities=34%  Similarity=0.517  Sum_probs=22.7

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      +.-|+|.||||+||||+|+.   ..|.++++.
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34588999999999999973   347777764

>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=96.15  E-value=0.00064  Score=54.20  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=21.8

Q ss_pred             CCCCCceeEEEcCCCCCCCccccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      |+.+..-++|+||||+|||+++...+
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~   41 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTG   41 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHH
Confidence            46777778999999999999997554

>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=96.14  E-value=0.001  Score=51.73  Aligned_cols=30  Identities=27%  Similarity=0.503  Sum_probs=23.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      .+.-|+|.||||+||||+|+..   .|.++++.
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            3457899999999999999733   46766644

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.11  E-value=0.0015  Score=50.60  Aligned_cols=27  Identities=26%  Similarity=0.306  Sum_probs=17.5

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~   58 (225)
                      +.-|+|.|+||+||||+|+.   ..+.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            34688999999999999973   3466666

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.11  E-value=0.0011  Score=53.79  Aligned_cols=30  Identities=20%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             CCceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      .+.-|+|.||||+||||+|+.   ..|.++++.
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            346789999999999999973   346666643

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.10  E-value=0.0009  Score=54.12  Aligned_cols=17  Identities=35%  Similarity=0.784  Sum_probs=15.3

Q ss_pred             eEEEcCCCCCCCccccc
Q psy7782          35 VILYGPPGTGKTLPFSP   51 (225)
Q Consensus        35 iLl~GppGtGKT~la~~   51 (225)
                      |+|.||||+||+|.|+.
T Consensus         3 Iil~GpPGsGKgTqa~~   19 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKR   19 (206)
T ss_dssp             EEEECSTTSSHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            78999999999999973

>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=96.08  E-value=0.001  Score=53.21  Aligned_cols=26  Identities=27%  Similarity=0.392  Sum_probs=20.2

Q ss_pred             eEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          35 VILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      |+|.||||+||||+|+.   ..|.++++.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            78999999999999973   346666544

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.08  E-value=0.00098  Score=51.92  Aligned_cols=28  Identities=32%  Similarity=0.553  Sum_probs=21.6

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      +.-|+|.|+||+||||+|+.   ..|.++++
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~   33 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLS   33 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            35689999999999999973   34666664

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.06  E-value=0.0012  Score=53.21  Aligned_cols=29  Identities=24%  Similarity=0.390  Sum_probs=22.3

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      +.-|+|.||||+||||+|+.   ..+.++++.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            35689999999999999973   346666654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.03  E-value=0.00059  Score=54.64  Aligned_cols=26  Identities=38%  Similarity=0.420  Sum_probs=21.1

Q ss_pred             CCCCCceeEEEcCCCCCCCccccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      |+.+..-++|+||||+|||++++..+
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~   44 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFI   44 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHH
Confidence            46666778999999999999987444

>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=96.01  E-value=0.0011  Score=50.96  Aligned_cols=28  Identities=29%  Similarity=0.453  Sum_probs=21.9

Q ss_pred             ceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      +-|+|.|+||+|||++|+.   ..|.++++.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEcc
Confidence            3589999999999999973   347777653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.99  E-value=0.0011  Score=50.84  Aligned_cols=28  Identities=25%  Similarity=0.246  Sum_probs=23.1

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      ..|+|.|+|||||||+++   ...|.++++.
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            578999999999999997   3357888764

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=95.99  E-value=0.02  Score=47.39  Aligned_cols=57  Identities=26%  Similarity=0.355  Sum_probs=46.8

Q ss_pred             eeEEEEEecC-CeEEEEccCCCeEEEeecCCCCcC-----------------CCCCCCeEEecCCcceeeeccCC
Q psy7782         162 VGTLEEIIDD-NHAIVSTSVGSEHYVSILSFVDKD-----------------QLEPGCSVLLNHKVHAVVGVLSD  218 (225)
Q Consensus       162 vg~v~e~~d~-~~~iV~~~~g~~~~v~v~~~vd~~-----------------~L~pG~~V~ln~~~~~Iv~vLp~  218 (225)
                      |.+|.|+++| ++++|...+|.+-+|..++.+-..                 .|+|||+|.++..+=..++.+|.
T Consensus       161 v~tv~E~l~d~~R~lV~~~~~eerVv~lA~~L~~~~~~~~~~~~~~~~~~~~~lr~GDsllvD~rag~A~E~ip~  235 (251)
T 3m9b_A          161 ISTLREILADGHRALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTRPRKLRPGDSLLVDTKAGYAFERIPL  235 (251)
T ss_dssp             EEEEEEECTTSSEEEEECSSSCEEEEECCGGGTCSCCCCCCCSSSCCCCSCCCCCTTCEEEECTTTCBEEEECCC
T ss_pred             EEEEEEEecCCCEEEEecCCCceEEEEechhhhccccccccccccccccccCCCCCCCEEEEeCCCceEEEEccC
Confidence            5678888865 599998889999999998887655                 89999999999877666776664

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.96  E-value=0.0011  Score=52.96  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=20.3

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      |+|.||||+||||+|+..   .|.++++.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            789999999999999733   46666644

>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=95.95  E-value=0.00068  Score=54.86  Aligned_cols=26  Identities=27%  Similarity=0.254  Sum_probs=21.1

Q ss_pred             CCCCCceeEEEcCCCCCCCccccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      |+++..-++|+||||+|||+++...+
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~   45 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLA   45 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHH
Confidence            46666778999999999999997443

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.89  E-value=0.0015  Score=54.25  Aligned_cols=27  Identities=26%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             eeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      -+++.||||+|||++|+..   .+.++++.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~   32 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVAL   32 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEEC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEec
Confidence            4789999999999999743   35566544

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.89  E-value=0.0026  Score=52.60  Aligned_cols=22  Identities=36%  Similarity=0.522  Sum_probs=18.8

Q ss_pred             CCCceeEEEcCCCCCCCccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~   51 (225)
                      ..+.-++|.||||+||||+|+.
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~   51 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRI   51 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHH
Confidence            4567789999999999999974

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.88  E-value=0.0014  Score=51.17  Aligned_cols=29  Identities=24%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             CCceeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      .+.-|.|.||||+||||+|+.   ..|.++++
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   39 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   39 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            345789999999999999973   34666664

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=95.88  E-value=0.002  Score=56.22  Aligned_cols=20  Identities=30%  Similarity=0.330  Sum_probs=17.7

Q ss_pred             CCceeEE--EcCCCCCCCcccc
Q psy7782          31 PPKGVIL--YGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl--~GppGtGKT~la~   50 (225)
                      .+..+++  +||||||||++++
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~   70 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAK   70 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHH
T ss_pred             CCCEEEEeCcCcCCCCHHHHHH
Confidence            4568899  9999999999996

>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=95.87  E-value=0.00082  Score=53.00  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=17.7

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+.|.||+|+||||+++.++|
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g   22 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999986655

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.84  E-value=0.0016  Score=53.63  Aligned_cols=31  Identities=29%  Similarity=0.388  Sum_probs=23.4

Q ss_pred             CCCceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      ..+.-|+|.||||+||||+|+..   .|.++++.
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            35667999999999999999743   45555543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.80  E-value=0.0012  Score=52.15  Aligned_cols=25  Identities=24%  Similarity=0.321  Sum_probs=19.7

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .++.-+.|.||||+||||+++..++
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3455678999999999999985544

>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=95.80  E-value=0.0016  Score=50.64  Aligned_cols=18  Identities=39%  Similarity=0.575  Sum_probs=16.2

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-|+|.||||+||||+++
T Consensus         4 ~~I~i~G~~GsGKsT~~~   21 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQ   21 (192)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            458899999999999997

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.79  E-value=0.0014  Score=52.75  Aligned_cols=29  Identities=21%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      .+.-|+|.||||+||||+++..   .+..+++
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            3456899999999999999733   4555554

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.79  E-value=0.0019  Score=52.62  Aligned_cols=29  Identities=24%  Similarity=0.369  Sum_probs=22.5

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      +.-|+|.||||+||||+|+.   ..+.++++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            35699999999999999973   346666654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.78  E-value=0.0013  Score=51.50  Aligned_cols=28  Identities=25%  Similarity=0.446  Sum_probs=21.8

Q ss_pred             CceeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      +.-|.|.||||+||||+|+.   ..|.++++
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   42 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLS   42 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            45689999999999999973   34666664

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.78  E-value=0.0021  Score=50.95  Aligned_cols=29  Identities=24%  Similarity=0.485  Sum_probs=22.4

Q ss_pred             CceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      ++-|+|.||||+||||+|+..   .|..+++.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            457899999999999999733   36666643

>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=95.77  E-value=0.002  Score=51.07  Aligned_cols=25  Identities=36%  Similarity=0.224  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCCCCcccccc--cCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPA--LGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~--~~~~~~   58 (225)
                      -+.|.|||||||||+++..  .|.+++
T Consensus         4 ~i~l~G~~GsGKST~~~~La~lg~~~i   30 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTDLGVPLV   30 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHTTTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHCCCccc
Confidence            4678999999999999844  455554

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.76  E-value=0.0017  Score=49.66  Aligned_cols=26  Identities=27%  Similarity=0.269  Sum_probs=20.7

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      -|+|.|+||+|||++|+.   ..|.++++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   30 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYD   30 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            378999999999999973   35677764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.75  E-value=0.0014  Score=52.79  Aligned_cols=28  Identities=29%  Similarity=0.465  Sum_probs=22.2

Q ss_pred             ceeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      .-|+|.||||+||||+|+.   ..|.++++.
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4589999999999999973   357777754

>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=95.74  E-value=0.00077  Score=54.04  Aligned_cols=27  Identities=26%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      |+.+..-+.|.||+|+|||+|++.+++
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            556666678999999999999986655

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.74  E-value=0.0017  Score=50.41  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      +..=+.|.||+|+||||+++..
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4445779999999999999853

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.73  E-value=0.0021  Score=50.77  Aligned_cols=29  Identities=17%  Similarity=0.314  Sum_probs=22.2

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      +.-|+|.||||+||||+++   ...|.++++.
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~   46 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   46 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeH
Confidence            4568899999999999996   3456666653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.72  E-value=0.0016  Score=50.59  Aligned_cols=17  Identities=35%  Similarity=0.503  Sum_probs=15.5

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -|+|.||||+||||+|+
T Consensus         3 ~I~i~G~~GsGKsT~~~   19 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLA   19 (194)
T ss_dssp             EEEEEECTTSCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47899999999999996

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.69  E-value=0.0013  Score=52.16  Aligned_cols=28  Identities=29%  Similarity=0.519  Sum_probs=21.0

Q ss_pred             CCceeEEEcCCCCCCCccccccc---CCcee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL---GYHYY   58 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~---~~~~~   58 (225)
                      ++.-+.|.||||+||||+++..+   |..++
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i   58 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA   58 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCeEE
Confidence            34568899999999999998544   44444

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.69  E-value=0.002  Score=60.55  Aligned_cols=16  Identities=56%  Similarity=0.883  Sum_probs=13.8

Q ss_pred             eeEEEcCCCCCCCccc
Q psy7782          34 GVILYGPPGTGKTLPF   49 (225)
Q Consensus        34 giLl~GppGtGKT~la   49 (225)
                      =.|++||||||||+.+
T Consensus       207 ~~lI~GPPGTGKT~ti  222 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTV  222 (646)
T ss_dssp             EEEEECCTTSCHHHHH
T ss_pred             ceEEECCCCCCHHHHH
Confidence            3589999999999865

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.63  E-value=0.0015  Score=51.07  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=18.3

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+-+.|.||+|+||||+++..++
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34578999999999999974443

>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=95.61  E-value=0.0014  Score=52.05  Aligned_cols=25  Identities=16%  Similarity=0.106  Sum_probs=20.1

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .++.-+.|.||+||||||+++..++
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4556678999999999999985544

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.58  E-value=0.0022  Score=51.94  Aligned_cols=23  Identities=39%  Similarity=0.470  Sum_probs=19.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..-++++|+||+|||++|.
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l   48 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAA   48 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHH
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHH
Confidence            56777778999999999999984

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.56  E-value=0.0018  Score=51.84  Aligned_cols=27  Identities=26%  Similarity=0.311  Sum_probs=21.2

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      -|+|.||||+||||+|+.   ..|.++++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            378999999999999973   346666655

>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=95.54  E-value=0.0013  Score=51.55  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=17.7

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+.|.||||+||||+++.+++
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            367899999999999986654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.53  E-value=0.0021  Score=51.97  Aligned_cols=23  Identities=48%  Similarity=0.650  Sum_probs=19.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..-++++||||+|||+++.
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~   41 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQ   41 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHH
Confidence            56677778999999999999975

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.51  E-value=0.0054  Score=51.91  Aligned_cols=18  Identities=22%  Similarity=0.235  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +.++++||+|+|||++++
T Consensus        32 ~~v~i~G~~G~GKT~Ll~   49 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLR   49 (350)
T ss_dssp             SEEEEECCTTSSHHHHHH
T ss_pred             CeEEEECCCcCCHHHHHH
Confidence            589999999999999986

>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=95.49  E-value=0.0016  Score=50.23  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=21.1

Q ss_pred             CceeEEEcCCCCCCCccccccc---CCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL---GYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~---~~~~~~   59 (225)
                      ..-+.|.||||+||||+++..+   |..+++
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            3457899999999999998443   555554

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.49  E-value=0.0032  Score=50.09  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=19.5

Q ss_pred             CCCCceeEEEcCCCCCCCccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +..++-++|.||||+||||+++.
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~   31 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKK   31 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHH
T ss_pred             cccCCEEEEECCCCCCHHHHHHH
Confidence            45667889999999999999873

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.42  E-value=0.0024  Score=51.68  Aligned_cols=26  Identities=19%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      |+|.||||+||||+|+..   .|.++++.
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            789999999999999733   46666654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.42  E-value=0.0023  Score=54.78  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=19.8

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .++.-+.|.||+|+||||+++..+|
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3455678999999999999975554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.35  E-value=0.0022  Score=50.54  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=18.4

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..=+.|.||+|+||||+++..++
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            34567899999999999985554

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.34  E-value=0.0043  Score=49.49  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=18.7

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +..-+.+.||+|+|||||++.+++
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            444567999999999999975544

>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=95.31  E-value=0.0015  Score=54.61  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=19.9

Q ss_pred             CCCCCceeEEEcCCCCCCCccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      |+.+..-++|+||||+|||+|+..
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~   49 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQ   49 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHH
Confidence            555666789999999999999863

>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=95.28  E-value=0.003  Score=49.94  Aligned_cols=26  Identities=27%  Similarity=0.158  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccc--cCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSPA--LGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~--~~~~~~~   59 (225)
                      -|.|.||+||||||+++..  .|.++++
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~~g~~~i~   30 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRELGAYVLD   30 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHHCCCEEEE
Confidence            4789999999999999744  4555553

>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=95.23  E-value=0.0022  Score=53.94  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=21.3

Q ss_pred             cCCCCCceeEEEcCCCCCCCccccc
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|+.+..-++|.||||+|||+|+..
T Consensus        30 ~~l~~G~~~~i~G~~G~GKTTl~~~   54 (296)
T 1cr0_A           30 LGARGGEVIMVTSGSGMGKSTFVRQ   54 (296)
T ss_dssp             CSBCTTCEEEEEESTTSSHHHHHHH
T ss_pred             cCCCCCeEEEEEeCCCCCHHHHHHH
Confidence            5677777788999999999999863

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.23  E-value=0.0032  Score=49.67  Aligned_cols=18  Identities=22%  Similarity=0.281  Sum_probs=16.1

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-|+|.||||+||||+|+
T Consensus         5 ~~I~i~G~~GsGKsT~~~   22 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQAT   22 (213)
T ss_dssp             EEEEEECCTTSSHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHH
Confidence            457899999999999996

>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=95.22  E-value=0.0032  Score=50.52  Aligned_cols=26  Identities=23%  Similarity=0.415  Sum_probs=19.8

Q ss_pred             ceeEEEcCCCCCCCccccccc---CCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL---GYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~---~~~~~   58 (225)
                      .-+.|.|||||||||+++..+   |.+++
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~   34 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLL   34 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcc
Confidence            357899999999999998443   44444

>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=95.21  E-value=0.0037  Score=51.59  Aligned_cols=27  Identities=33%  Similarity=0.413  Sum_probs=21.3

Q ss_pred             CceeEEEcCCCCCCCccccccc---CCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL---GYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~---~~~~~   58 (225)
                      +.-+.+.||||||||++++..+   |.+++
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~   38 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYL   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcc
Confidence            4568899999999999998554   65555

>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=95.20  E-value=0.0026  Score=50.91  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=17.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ++.=+.|.||+|+|||++++..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L   28 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAV   28 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHH
Confidence            3455789999999999999743

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.20  E-value=0.0051  Score=53.33  Aligned_cols=33  Identities=24%  Similarity=0.200  Sum_probs=24.1

Q ss_pred             cCChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          18 LTHPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        18 l~~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ...+.+-.-+  |+++..-++++||||+|||++|.
T Consensus       106 TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~  140 (343)
T 1v5w_A          106 TGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSH  140 (343)
T ss_dssp             CSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHH
T ss_pred             cCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHH
Confidence            3445555544  46666667899999999999985

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.17  E-value=0.003  Score=55.37  Aligned_cols=33  Identities=18%  Similarity=0.103  Sum_probs=24.3

Q ss_pred             cCChHHHHHcC---CCCCceeEEEcCCCCCCCcccc
Q psy7782          18 LTHPEYYEEMG---IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        18 l~~~~~~~~~g---~~~~~giLl~GppGtGKT~la~   50 (225)
                      ...+++-.-+|   +++..-++++||||||||+|+.
T Consensus        44 TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal   79 (356)
T 3hr8_A           44 TGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLAL   79 (356)
T ss_dssp             CSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHH
T ss_pred             CCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHH
Confidence            34555555554   5566668899999999999985

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.14  E-value=0.0033  Score=54.84  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=19.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++.+-++++||||+|||+||.
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal   79 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVAL   79 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHH
Confidence            35566668999999999999985

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.14  E-value=0.0022  Score=51.03  Aligned_cols=24  Identities=33%  Similarity=0.646  Sum_probs=18.5

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+-+.|.||+|+||||+++.+++
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            446688999999999999975544

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=95.08  E-value=0.0059  Score=51.74  Aligned_cols=18  Identities=22%  Similarity=0.226  Sum_probs=16.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      ..++++||+|+|||++++
T Consensus        31 ~~v~i~G~~G~GKT~L~~   48 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIK   48 (357)
T ss_dssp             SEEEEEESTTSSHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            489999999999999986

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.07  E-value=0.0042  Score=49.91  Aligned_cols=18  Identities=39%  Similarity=0.724  Sum_probs=15.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      --.|++|+||||||++|.
T Consensus         6 mi~l~tG~pGsGKT~~a~   23 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMV   23 (199)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHH
Confidence            357899999999999874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.07  E-value=0.004  Score=50.40  Aligned_cols=24  Identities=29%  Similarity=0.290  Sum_probs=15.0

Q ss_pred             CCceeEEEcCCCCCCCccccccc-C
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL-G   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~-~   54 (225)
                      +..=+.|.||+|+||||+++..+ +
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~   50 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEK   50 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            34456799999999999998776 5

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.06  E-value=0.0058  Score=52.44  Aligned_cols=32  Identities=22%  Similarity=0.259  Sum_probs=23.9

Q ss_pred             CChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+-.-+  |+++..-++++||||+|||++|.
T Consensus        92 G~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~  125 (324)
T 2z43_A           92 GSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCH  125 (324)
T ss_dssp             SCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHH
T ss_pred             CchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHH
Confidence            344544444  46666778999999999999985

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.04  E-value=0.0027  Score=51.34  Aligned_cols=26  Identities=23%  Similarity=0.428  Sum_probs=19.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+.|.||+|+||||+++.++|
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            34445577999999999999986655

>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=95.04  E-value=0.0042  Score=49.46  Aligned_cols=18  Identities=33%  Similarity=0.772  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      |.|+|.||+|+|||++++
T Consensus         2 RpIVi~GPSG~GK~Tl~~   19 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLK   19 (186)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            569999999999999986

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.03  E-value=0.0032  Score=55.21  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=19.9

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .++.-+.|.||+|+||||+++.+++
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHh
Confidence            3455678999999999999975554

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.03  E-value=0.0034  Score=52.51  Aligned_cols=34  Identities=21%  Similarity=0.429  Sum_probs=24.8

Q ss_pred             hHHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          21 PEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        21 ~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +..+..+.+.+..-+++.||+|+||||+++.+++
T Consensus        14 ~~vl~~i~i~~g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           14 PDKVLELCHRKMGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             CTHHHHGGGCSSEEEEEECSTTCSHHHHHHHHHH
T ss_pred             HHHHHHHhhCCCCEEEEECCCCccHHHHHHHHHH
Confidence            3455555545555578999999999999985555

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.02  E-value=0.0039  Score=51.54  Aligned_cols=26  Identities=19%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCCCCccccccc---CCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL---GYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~---~~~~~   58 (225)
                      .-|.|.||+||||||+++..+   |..++
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            457799999999999999777   87766

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=95.01  E-value=0.0066  Score=53.11  Aligned_cols=30  Identities=27%  Similarity=0.329  Sum_probs=23.3

Q ss_pred             hHHHHHc---CCCCCceeEEEcCCCCCCCcccc
Q psy7782          21 PEYYEEM---GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        21 ~~~~~~~---g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +.+-.-+   |+++.+-++++||||+|||++|.
T Consensus        49 ~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal   81 (356)
T 1u94_A           49 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTL   81 (356)
T ss_dssp             HHHHHHTSSSSEETTSEEEEECSTTSSHHHHHH
T ss_pred             HHHHHHhccCCccCCeEEEEECCCCCCHHHHHH
Confidence            4454445   36777789999999999999985

>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=94.98  E-value=0.0054  Score=48.07  Aligned_cols=29  Identities=24%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             CceeEEEcCCCCCCCcccccc--cCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA--LGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~--~~~~~~~~   60 (225)
                      +.-|.|.|++|||||++++..  .|.++++.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~g~~~id~   38 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSWGYPVLDL   38 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHTTCCEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHCCCEEEcc
Confidence            456889999999999999722  26666643

>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=94.97  E-value=0.0035  Score=53.79  Aligned_cols=29  Identities=28%  Similarity=0.584  Sum_probs=23.9

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+++..-+.|.||+|+|||||++.++|.
T Consensus       121 l~i~~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          121 KGIPKKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             HTCTTCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEecCCCEEEEECCCCCcHHHHHHHHhhh
Confidence            45666677889999999999999977764

>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=94.94  E-value=0.0035  Score=53.76  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=18.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      .+++-+++.||+|+||||++...
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~L  124 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKL  124 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHH
Confidence            34566889999999999988633

>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=94.92  E-value=0.0051  Score=51.03  Aligned_cols=27  Identities=26%  Similarity=0.199  Sum_probs=21.0

Q ss_pred             CceeEEEcCCCCCCCcccccc------cCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA------LGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~------~~~~~~   58 (225)
                      +.-|+|.|+||+||||+|+..      .|.+++
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i   36 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVI   36 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEE
Confidence            346889999999999999732      566666

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.89  E-value=0.0047  Score=48.37  Aligned_cols=16  Identities=25%  Similarity=0.584  Sum_probs=14.9

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |.|.|+||+||||+++
T Consensus         3 I~i~G~~GsGKsT~~~   18 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISA   18 (205)
T ss_dssp             EEEECCTTSCHHHHHH
T ss_pred             EEEECCCccCHHHHHH
Confidence            7899999999999997

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=94.89  E-value=0.0065  Score=51.86  Aligned_cols=32  Identities=22%  Similarity=0.282  Sum_probs=23.3

Q ss_pred             CChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+-.-+  |+++..-++++||||+|||++|.
T Consensus        83 G~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~  116 (322)
T 2i1q_A           83 SSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMH  116 (322)
T ss_dssp             SCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHH
T ss_pred             CChhHHHhcCCCccCCeEEEEECCCCCCHHHHHH
Confidence            344444444  45666668999999999999985

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.85  E-value=0.0072  Score=48.83  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=17.4

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .++++|.||+|+|||++|.
T Consensus        34 g~~ilI~GpsGsGKStLA~   52 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETAL   52 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHH
Confidence            5789999999999999985

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.84  E-value=0.0062  Score=52.65  Aligned_cols=29  Identities=31%  Similarity=0.398  Sum_probs=22.6

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      ++-++|.||+|+|||++|.   ...+..+++.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~   36 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISV   36 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEec
Confidence            3578999999999999996   3345666665

>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=94.81  E-value=0.0068  Score=47.60  Aligned_cols=30  Identities=13%  Similarity=0.074  Sum_probs=21.9

Q ss_pred             CceeEEEcCCCCCCCcccccc---c-CCceeecc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---L-GYHYYCRG   61 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~-~~~~~~~~   61 (225)
                      +.-|.|.||||+||||+++..   . |.+++.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            456889999999999998622   2 46666543

>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=94.81  E-value=0.0038  Score=48.26  Aligned_cols=28  Identities=29%  Similarity=0.150  Sum_probs=22.1

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+.+..-+.|.||.|+|||||++.++|.
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3444455789999999999999977774

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=94.80  E-value=0.0049  Score=53.35  Aligned_cols=22  Identities=27%  Similarity=0.199  Sum_probs=17.3

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++. -++++||||+|||+||-
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~L   46 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGL   46 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHH
T ss_pred             CCcCC-eEEEECCCCCCHHHHHH
Confidence            35544 46899999999999973

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.79  E-value=0.0038  Score=51.92  Aligned_cols=29  Identities=31%  Similarity=0.448  Sum_probs=23.3

Q ss_pred             CceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      ..-+.|.|||||||||+++..   .|.+|++.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            567999999999999999743   56777753

>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=94.77  E-value=0.0037  Score=49.87  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=19.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+.|.||+|+||||+++.++|
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            34444567999999999999986666

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.75  E-value=0.0045  Score=52.01  Aligned_cols=26  Identities=27%  Similarity=0.407  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCccccccc----CCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL----GYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~----~~~~~   58 (225)
                      .-|+|.||||+||||+|+..+    |..++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i   32 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEe
Confidence            468999999999999997433    55555

>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=94.74  E-value=0.0026  Score=55.42  Aligned_cols=35  Identities=20%  Similarity=0.149  Sum_probs=24.2

Q ss_pred             CChHHHHH--cCCCCCceeEEEcCCCCCCCccccccc
Q psy7782          19 THPEYYEE--MGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        19 ~~~~~~~~--~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ..+.+-.-  .|+++..-+.|+||||+|||+|+...+
T Consensus       116 G~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~  152 (349)
T 1pzn_A          116 GSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLA  152 (349)
T ss_dssp             SCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            34444333  345666667899999999999997443

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.73  E-value=0.0054  Score=47.63  Aligned_cols=27  Identities=26%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             eEEEcCCCCCCCcccccc------cCCceeecc
Q psy7782          35 VILYGPPGTGKTLPFSPA------LGYHYYCRG   61 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~------~~~~~~~~~   61 (225)
                      |.|.|+||+||||+++..      .|.++++..
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            689999999999999732      377777653

>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=94.72  E-value=0.0063  Score=48.14  Aligned_cols=21  Identities=19%  Similarity=0.162  Sum_probs=17.6

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      .+.-|.|.|+||+||||+++.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~   28 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRK   28 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHH
Confidence            345688999999999999973

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.71  E-value=0.0059  Score=48.26  Aligned_cols=20  Identities=20%  Similarity=0.182  Sum_probs=17.2

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      +.-|.|.|+||+||||+++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~   29 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKL   29 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHH
Confidence            45688999999999999973

>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=94.71  E-value=0.0048  Score=48.95  Aligned_cols=23  Identities=17%  Similarity=0.007  Sum_probs=18.2

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.-+.+.||||+||||+++..++
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34467999999999999985444

>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=94.69  E-value=0.0076  Score=48.16  Aligned_cols=28  Identities=29%  Similarity=0.250  Sum_probs=21.7

Q ss_pred             ceeEEEcCCCCCCCccccc--ccCCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFSP--ALGYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~--~~~~~~~~~   60 (225)
                      .-|.|.|++|+||||+++.  ..|.++++.
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~lg~~~id~   34 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFADLGINVIDA   34 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHcCCEEEEc
Confidence            4578999999999999973  356666654

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=94.64  E-value=0.0081  Score=53.41  Aligned_cols=31  Identities=19%  Similarity=0.204  Sum_probs=23.0

Q ss_pred             ChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          20 HPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        20 ~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      .+++-.-+  |+.+..-++|+||||||||+|+.
T Consensus       164 ~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~  196 (400)
T 3lda_A          164 SKNLDTLLGGGVETGSITELFGEFRTGKSQLCH  196 (400)
T ss_dssp             CHHHHHHTTTSEETTSEEEEEESTTSSHHHHHH
T ss_pred             ChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHH
Confidence            34444434  46666678899999999999997

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=94.61  E-value=0.0055  Score=53.82  Aligned_cols=32  Identities=25%  Similarity=0.259  Sum_probs=24.2

Q ss_pred             CChHHHHHc---CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM---GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~---g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+++-.-+   |+++..-++++||||+|||+||.
T Consensus        58 G~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal   92 (366)
T 1xp8_A           58 GSLSLDLALGVGGIPRGRITEIYGPESGGKTTLAL   92 (366)
T ss_dssp             SCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHH
T ss_pred             CCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHH
Confidence            345555544   46667778999999999999984

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.60  E-value=0.0049  Score=66.28  Aligned_cols=48  Identities=21%  Similarity=0.188  Sum_probs=37.1

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC---CCccchhhhhhcC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN---SDKKDDKDKKKKY   78 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~---~~~~~~f~~a~~~   78 (225)
                      ...|++++||||||||.+++   ...|.+++.++..++   +...++|..|.+.
T Consensus       644 ~~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~  697 (2695)
T 4akg_A          644 QKYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQI  697 (2695)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHH
T ss_pred             hCCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhc
Confidence            34799999999999999997   678899999988886   3345666555443

>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=94.58  E-value=0.0059  Score=48.67  Aligned_cols=28  Identities=25%  Similarity=0.184  Sum_probs=21.6

Q ss_pred             ceeEEEcCCCCCCCcccc--ccc-CCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFS--PAL-GYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~--~~~-~~~~~~~   60 (225)
                      .-|.|.|++||||||+++  +.. |.++++.
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~   43 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNV   43 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEEC
Confidence            456799999999999997  333 7777753

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.52  E-value=0.0087  Score=46.57  Aligned_cols=22  Identities=36%  Similarity=0.329  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      .+.-++|.|+||+||||+++..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L   33 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRL   33 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHH
Confidence            4456789999999999999743

>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=94.52  E-value=0.004  Score=54.48  Aligned_cols=34  Identities=26%  Similarity=0.498  Sum_probs=22.3

Q ss_pred             hHHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          21 PEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        21 ~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++.+..+-..+..-+++.||+|+||||+.++++|
T Consensus       112 ~~~l~~l~~~~~g~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          112 GEVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             CHHHHHHHHCSSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hHHHHHHHhCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3444444223334478999999999999874433

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.49  E-value=0.01  Score=47.02  Aligned_cols=23  Identities=17%  Similarity=-0.021  Sum_probs=18.2

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .+.-+.+.||+|+||||+++..+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~   43 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLS   43 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34457799999999999997443

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.49  E-value=0.0069  Score=47.91  Aligned_cols=19  Identities=26%  Similarity=0.338  Sum_probs=17.4

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||+|+|||++|.
T Consensus        16 G~gvli~G~SGaGKStlal   34 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSL   34 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            5799999999999999885

>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=94.46  E-value=0.0054  Score=49.27  Aligned_cols=24  Identities=25%  Similarity=0.421  Sum_probs=18.8

Q ss_pred             CCCceeEEEcCCCCCCCccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ...+-+.|.||+|+|||++++.++
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~   40 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALL   40 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHH
Confidence            345667899999999999987443

>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=94.38  E-value=0.0047  Score=54.28  Aligned_cols=33  Identities=18%  Similarity=0.366  Sum_probs=24.0

Q ss_pred             HHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          22 EYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        22 ~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..+..+-+.+..-+++.||+|+||||+++.+++
T Consensus       126 ~~l~~l~~~~g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          126 DKVLELCHRKMGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SSHHHHTTSSSEEEEEECSSSSSHHHHHHHHHH
T ss_pred             HHHHHHhhcCCCEEEEECCCCCCHHHHHHHHHh
Confidence            345555455555678999999999999975544

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.33  E-value=0.011  Score=52.58  Aligned_cols=29  Identities=31%  Similarity=0.445  Sum_probs=21.5

Q ss_pred             CCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      .+.=|+|.||||+||||+|+..   .+..+++
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            3566889999999999999743   3444443

>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=94.31  E-value=0.0074  Score=47.47  Aligned_cols=26  Identities=31%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             eeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      -|.+.||+|+|||++++..   .|.++++
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d   32 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLS   32 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceec
Confidence            5789999999999999733   4566664

>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=94.29  E-value=0.0038  Score=57.06  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..+.-+.|.||+|+||||+++.++|
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHH
Confidence            3445578999999999999976555

>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=94.28  E-value=0.008  Score=50.57  Aligned_cols=29  Identities=24%  Similarity=0.114  Sum_probs=21.8

Q ss_pred             CceeEEEcCCCCCCCccccc--ccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSP--ALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~--~~~~~~~~~   60 (225)
                      +.-|.|.|+||+||||+|+.  ..|.++++.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La~lg~~~id~  105 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLKNLGAYIIDS  105 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCCcEEeh
Confidence            34588999999999999973  356666644

>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=94.21  E-value=0.013  Score=46.02  Aligned_cols=31  Identities=13%  Similarity=0.135  Sum_probs=24.1

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccccccCCce
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      +.+....-+.|.||+|+|||+|.++.+|..+
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~   51 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKS   51 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC--
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4555555688999999999999998888764

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.20  E-value=0.011  Score=47.08  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=19.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...+.-++|.|+||+||||+++..
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l   45 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVEL   45 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHH
Confidence            445566889999999999999743

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.15  E-value=0.012  Score=50.38  Aligned_cols=32  Identities=25%  Similarity=0.184  Sum_probs=23.6

Q ss_pred             CChHHHHH-cCCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEE-MGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~-~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+++-.- .|+.+..=+++.|+||+|||++|.
T Consensus        54 G~~~LD~~lgGl~~G~l~li~G~pG~GKTtl~l   86 (315)
T 3bh0_A           54 GFTELDRMTYGYKRRNFVLIAARPSMGKTAFAL   86 (315)
T ss_dssp             SCHHHHHHHSSBCTTCEEEEECCTTSSHHHHHH
T ss_pred             ChHHHHhhcCCCCCCcEEEEEeCCCCCHHHHHH
Confidence            34444433 357777778999999999999984

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.11  E-value=0.0087  Score=47.19  Aligned_cols=16  Identities=31%  Similarity=0.447  Sum_probs=14.5

Q ss_pred             eeEEEcCCCCCCCccc
Q psy7782          34 GVILYGPPGTGKTLPF   49 (225)
Q Consensus        34 giLl~GppGtGKT~la   49 (225)
                      -++++||||+|||+++
T Consensus         5 i~vi~G~~gsGKTT~l   20 (184)
T 2orw_A            5 LTVITGPMYSGKTTEL   20 (184)
T ss_dssp             EEEEEESTTSSHHHHH
T ss_pred             EEEEECCCCCCHHHHH
Confidence            4689999999999987

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=94.11  E-value=0.023  Score=52.12  Aligned_cols=40  Identities=18%  Similarity=0.241  Sum_probs=26.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|-++..+.|.+.+...           -...+-++++||+|+|||++|..
T Consensus       127 vGR~~~l~~L~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~  166 (591)
T 1z6t_A          127 VTRKKLVNAIQQKLSKL-----------KGEPGWVTIHGMAGCGKSVLAAE  166 (591)
T ss_dssp             CCCHHHHHHHHHHHTTS-----------TTSCEEEEEECCTTSSHHHHHHH
T ss_pred             cccHHHHHHHHHHHhcc-----------cCCCceEEEEcCCCCCHHHHHHH
Confidence            34555555555554431           12346788999999999999963

>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=94.07  E-value=0.0068  Score=49.27  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=19.4

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++..-+.|.||+|+|||||++.++|
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            4455667999999999999986555

>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=94.05  E-value=0.008  Score=49.34  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=21.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||.|+|||||.+.++|.
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            344455679999999999999988874

>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=94.05  E-value=0.008  Score=49.40  Aligned_cols=27  Identities=30%  Similarity=0.279  Sum_probs=21.8

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||+|+|||||++.++|.
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           28 IPEGALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344455779999999999999988874

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.02  E-value=0.0085  Score=48.34  Aligned_cols=23  Identities=30%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .-+.|.||.|+|||||++.++|.
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45678999999999999988876

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.99  E-value=0.013  Score=45.27  Aligned_cols=28  Identities=21%  Similarity=0.259  Sum_probs=22.0

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCCce
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ....-+++.|++|+|||+|+.+.++..+
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~   73 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSV   73 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3456899999999999999986665443

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.95  E-value=0.043  Score=47.59  Aligned_cols=34  Identities=24%  Similarity=0.227  Sum_probs=25.2

Q ss_pred             ccCChHHHHHc-CCCCCceeEEEcCCCCCCCcccc
Q psy7782          17 PLTHPEYYEEM-GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        17 ~l~~~~~~~~~-g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |...+++-.-+ |+.+..=+++.|+||+|||+||.
T Consensus        30 ~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al   64 (338)
T 4a1f_A           30 PTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMM   64 (338)
T ss_dssp             CCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHH
T ss_pred             cCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHH
Confidence            34555555444 56666778999999999999984

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.94  E-value=0.0061  Score=48.45  Aligned_cols=21  Identities=48%  Similarity=0.665  Sum_probs=17.0

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+.|.||+|+||||+++.++|
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            367899999999999875444

>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=93.92  E-value=0.017  Score=49.83  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=19.7

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .++.-+.|.||+|+||||+++.+++
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456678999999999999875544

>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=93.92  E-value=0.012  Score=45.55  Aligned_cols=29  Identities=31%  Similarity=0.241  Sum_probs=21.5

Q ss_pred             CceeEEEcCCCCCCCccccccc------CCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL------GYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~------~~~~~~~   60 (225)
                      ..-+.|.|++|+||||+++..+      |.+++.+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~   39 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   39 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEE
Confidence            4557899999999999997433      5566544

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.88  E-value=0.007  Score=49.27  Aligned_cols=25  Identities=20%  Similarity=0.110  Sum_probs=20.5

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3344678999999999999988884

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.83  E-value=0.0094  Score=49.74  Aligned_cols=26  Identities=15%  Similarity=0.174  Sum_probs=20.9

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||.+.++|.
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            33344668999999999999988884

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=93.81  E-value=0.012  Score=55.05  Aligned_cols=18  Identities=44%  Similarity=0.765  Sum_probs=15.1

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-.+++||||||||+++.
T Consensus       196 ~~~li~GppGTGKT~~~~  213 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSA  213 (624)
T ss_dssp             SEEEEECCTTSCHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHH
Confidence            356899999999999764

>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=93.81  E-value=0.0085  Score=50.85  Aligned_cols=20  Identities=30%  Similarity=0.539  Sum_probs=16.7

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .+.-|.+.||+|+||||+++
T Consensus        30 ~~~ii~I~G~sGsGKSTla~   49 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSI   49 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            44556799999999999996

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.76  E-value=0.0069  Score=48.04  Aligned_cols=23  Identities=22%  Similarity=0.158  Sum_probs=18.4

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.-+.|.||+|+||||+++..++
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            34567999999999999985555

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.68  E-value=0.015  Score=46.33  Aligned_cols=27  Identities=26%  Similarity=0.353  Sum_probs=21.1

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      .-+.|.||||||||++++   ...|.++++
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~   33 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVD   33 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceec
Confidence            358899999999999996   335666664

>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=93.63  E-value=0.01  Score=48.90  Aligned_cols=27  Identities=30%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||.|+|||||.+.++|.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           25 AQPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344455779999999999999988874

>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=93.61  E-value=0.0077  Score=52.81  Aligned_cols=24  Identities=25%  Similarity=0.419  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..=+.|.||+|||||||.+.++|.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            334668999999999999877773

>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=93.60  E-value=0.013  Score=50.01  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=18.5

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.-+.|.||+||||||+++..++
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            45677999999999999975544

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.58  E-value=0.0092  Score=49.22  Aligned_cols=26  Identities=27%  Similarity=0.497  Sum_probs=21.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+ .-+.|.||+|+|||||.+.++|.
T Consensus        22 i~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           22 MGR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             ECS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             ECC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            445 56679999999999999988884

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.53  E-value=0.0071  Score=52.08  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=19.2

Q ss_pred             CCCceeEEEcCCCCCCCccccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .+++-+++.||+|+||||++...+
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA  126 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMA  126 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            456678899999999999886443

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.52  E-value=0.012  Score=49.39  Aligned_cols=26  Identities=31%  Similarity=0.381  Sum_probs=21.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||++.++|.
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34445679999999999999988884

>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=93.52  E-value=0.012  Score=47.73  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=20.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3445678999999999999988884

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.47  E-value=0.012  Score=49.11  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=22.2

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +.+..-+.|.||.|+|||||++.++|.
T Consensus        43 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           43 IPSGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            344455779999999999999988885

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=93.47  E-value=0.015  Score=52.21  Aligned_cols=17  Identities=41%  Similarity=0.577  Sum_probs=15.5

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      .+++.||||||||+++.
T Consensus        47 ~~li~G~aGTGKT~ll~   63 (459)
T 3upu_A           47 HVTINGPAGTGATTLTK   63 (459)
T ss_dssp             EEEEECCTTSCHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHH
Confidence            88999999999999874

>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=93.46  E-value=0.012  Score=49.24  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=20.9

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||++.++|.
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            33344679999999999999988884

>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=93.46  E-value=0.0089  Score=49.70  Aligned_cols=24  Identities=25%  Similarity=0.546  Sum_probs=20.0

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+.|.||.|+|||||.+.++|.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            334679999999999999988884

>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=93.40  E-value=0.009  Score=46.83  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --+.|.||+|+|||+|.+..++..
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            357899999999999998666543

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.38  E-value=0.02  Score=51.21  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=19.7

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..=+++.|+||+|||++|.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal  218 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFAL  218 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHH
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHH
Confidence            56676778999999999999984

>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=93.36  E-value=0.011  Score=52.37  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ...=+-|.||+|||||||.+.++|.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcC
Confidence            3334568999999999999877773

>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=93.36  E-value=0.012  Score=51.66  Aligned_cols=25  Identities=36%  Similarity=0.442  Sum_probs=19.9

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ...-+.|.||+|||||||.+.++|.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCC
Confidence            3344668999999999999877773

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.35  E-value=0.012  Score=51.66  Aligned_cols=24  Identities=29%  Similarity=0.469  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+.|.||+|||||||.+.++|.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            334568999999999999877774

>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=93.34  E-value=0.013  Score=49.31  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=20.1

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+.|.||.|+|||||++.++|.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            344678999999999999988884

>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=93.33  E-value=0.015  Score=43.81  Aligned_cols=26  Identities=38%  Similarity=0.395  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      --|++.|+||+|||+|+.+..+..+.
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~~~   30 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQER   30 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC---
T ss_pred             EEEEEECCCCccHHHHHHHHhcCCCc
Confidence            46899999999999999877765554

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.33  E-value=0.012  Score=51.45  Aligned_cols=24  Identities=38%  Similarity=0.476  Sum_probs=19.6

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+.|.||+|||||||.+.++|.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            344568999999999999877774

>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=93.32  E-value=0.028  Score=42.89  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=10.3

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--|++.|++|+|||+|+.+..+..+
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~~   33 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDAF   33 (183)
T ss_dssp             EEEEEEECCCCC--------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCC
Confidence            34689999999999999987665443

>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=93.31  E-value=0.012  Score=51.77  Aligned_cols=25  Identities=32%  Similarity=0.513  Sum_probs=19.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ...-+.|.||+|||||||.+.++|.
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            3344668999999999999877773

>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=93.30  E-value=0.013  Score=48.10  Aligned_cols=25  Identities=36%  Similarity=0.454  Sum_probs=20.6

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3344679999999999999988884

>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=93.28  E-value=0.011  Score=48.28  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4445679999999999999988774

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.27  E-value=0.019  Score=46.61  Aligned_cols=29  Identities=21%  Similarity=0.411  Sum_probs=21.7

Q ss_pred             CCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      .+.-|.|.||+|||||++++..   .|.++++
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            3456789999999999999743   4566653

>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=93.27  E-value=0.014  Score=45.11  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      -+++.|+||+|||+|+...++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999877763

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=93.23  E-value=0.046  Score=42.59  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=21.6

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      --|++.|++|+|||+|+.+..+..+.
T Consensus        34 ~ki~vvG~~~~GKSsli~~l~~~~~~   59 (199)
T 3l0i_B           34 FKLLLIGDSGVGKSCLLLRFADDTYT   59 (199)
T ss_dssp             EEEEEECCTTSCCTTTTTSSBCCCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            46899999999999999887775543

>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=93.22  E-value=0.011  Score=48.86  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||+|+|||||++.++|.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3445679999999999999988885

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.19  E-value=0.014  Score=48.82  Aligned_cols=26  Identities=19%  Similarity=0.371  Sum_probs=21.2

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||.+.++|.
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34445679999999999999988884

>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=93.19  E-value=0.021  Score=48.53  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=17.5

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      .++-++|.||+|+||||++..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~  124 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAK  124 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHH
Confidence            456688999999999998863

>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=93.19  E-value=0.012  Score=48.91  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=20.8

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3445679999999999999988885

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.18  E-value=0.022  Score=51.11  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..=+++.||||+|||+|+.
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l  221 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFAL  221 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHH
Confidence            57777778999999999999985

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=93.17  E-value=0.018  Score=53.50  Aligned_cols=19  Identities=42%  Similarity=0.623  Sum_probs=16.3

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+-+++.||||||||+++.
T Consensus       204 ~~~~~I~G~pGTGKTt~i~  222 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTK  222 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHH
Confidence            4567899999999999874

>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=93.13  E-value=0.014  Score=48.51  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=21.2

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||.+.++|.
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34445679999999999999988885

>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=93.13  E-value=0.014  Score=51.43  Aligned_cols=25  Identities=36%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ...-+.|.||+|||||||.+.++|.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcC
Confidence            3344668999999999999877774

>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=93.11  E-value=0.0099  Score=46.47  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=19.5

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+.|.||+|+|||+|++..++..+
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCC
Confidence            578999999999999986666443

>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=93.10  E-value=0.013  Score=49.05  Aligned_cols=26  Identities=27%  Similarity=0.439  Sum_probs=21.8

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||++.++|.
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34445679999999999999999996

>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=93.09  E-value=0.019  Score=47.15  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             CCceeEEEcCCCCCCCccccc---ccCCc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP---ALGYH   56 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~---~~~~~   56 (225)
                      .+.-|.|.||||+||||+|+.   ..|.+
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            345688999999999999972   25655

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.07  E-value=0.027  Score=48.90  Aligned_cols=27  Identities=26%  Similarity=0.279  Sum_probs=20.7

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      +-|+|.||+|+|||+++.   ...+.++++
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs   70 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFPLEVIN   70 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSCEEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCCCcEEc
Confidence            468899999999999986   344555654

>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=93.06  E-value=0.014  Score=52.45  Aligned_cols=20  Identities=35%  Similarity=0.494  Sum_probs=17.0

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      ++-+++.||+|+||||++..
T Consensus        97 ~~vI~lvG~~GsGKTTt~~k  116 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGK  116 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            56678999999999998753

>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=93.04  E-value=0.015  Score=43.58  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|+||+|||+|+.+..+..+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~~~   27 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGVED   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC--
T ss_pred             EEEEECCCCCCHHHHHHHHcCccc
Confidence            588999999999999987776544

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=93.03  E-value=0.012  Score=48.10  Aligned_cols=20  Identities=15%  Similarity=0.232  Sum_probs=16.7

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +-|.||+|+||||+++..++
T Consensus        28 igI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999985544

>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=93.03  E-value=0.016  Score=48.15  Aligned_cols=25  Identities=40%  Similarity=0.546  Sum_probs=21.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..+.|.|+||+|||+|+.+.+|..+
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~~~   28 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGLRQ   28 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTTCE
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4689999999999999987777554

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.03  E-value=0.017  Score=43.73  Aligned_cols=27  Identities=15%  Similarity=0.210  Sum_probs=20.9

Q ss_pred             CceeEEEcCCCCCCCcccccccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      .--|++.|+||+|||+|+.+..+..+.
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~~~~   35 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADNTFS   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            346899999999999999877765544

>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=93.02  E-value=0.016  Score=48.48  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=20.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+-|.||.|+|||||++.++|.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3444668999999999999988884

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.93  E-value=0.022  Score=58.99  Aligned_cols=32  Identities=25%  Similarity=0.295  Sum_probs=26.6

Q ss_pred             CChHHHHHcC---CCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEMG---IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~g---~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+++-.-+|   +++.+-++++||||+|||+||.
T Consensus       367 Gi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaL  401 (1706)
T 3cmw_A          367 GSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTL  401 (1706)
T ss_dssp             SCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHH
T ss_pred             CcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHH
Confidence            4667777775   7788889999999999999984

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.92  E-value=0.013  Score=49.33  Aligned_cols=25  Identities=36%  Similarity=0.456  Sum_probs=20.3

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3344679999999999999988874

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=92.87  E-value=0.012  Score=48.75  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=21.3

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||++.++|.
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3445679999999999999999996

>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=92.87  E-value=0.018  Score=51.89  Aligned_cols=20  Identities=30%  Similarity=0.552  Sum_probs=17.2

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ++.-+++.||||+||||++.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~  118 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVA  118 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHH
Confidence            35678999999999999875

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=92.85  E-value=0.016  Score=53.11  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .....+++.||+|+||||+++++++
T Consensus       258 ~~g~~i~I~GptGSGKTTlL~aL~~  282 (511)
T 2oap_1          258 EHKFSAIVVGETASGKTTTLNAIMM  282 (511)
T ss_dssp             HTTCCEEEEESTTSSHHHHHHHHGG
T ss_pred             hCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3456799999999999999986665

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.81  E-value=0.014  Score=48.48  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.|.||.|+|||||.+.++|.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3445679999999999999988874

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=92.76  E-value=0.026  Score=61.53  Aligned_cols=34  Identities=29%  Similarity=0.541  Sum_probs=25.0

Q ss_pred             CCceeEEEcCCCCCCCcccc----cccCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS----PALGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~----~~~~~~~~~~~~~~   64 (225)
                      ..+++||.||||||||++++    ...+.+++.++.+.
T Consensus      1303 ~~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~ 1340 (3245)
T 3vkg_A         1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSS 1340 (3245)
T ss_dssp             TTCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCT
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeC
Confidence            45799999999999998764    33345566666665

>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=92.75  E-value=0.016  Score=43.86  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+.|.|+||+|||+|..+.++..+
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~~~   28 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGENV   28 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCe
Confidence            578999999999999987776443

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=92.75  E-value=0.026  Score=45.93  Aligned_cols=19  Identities=32%  Similarity=0.518  Sum_probs=15.9

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ..=|.|.||||+||||+++
T Consensus        26 g~~i~i~G~~GsGKsT~~~   44 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVIN   44 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHH
Confidence            3456789999999999986

>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=92.73  E-value=0.0073  Score=47.79  Aligned_cols=16  Identities=25%  Similarity=0.418  Sum_probs=14.7

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |.|.||||+||||+++
T Consensus         3 I~i~G~~GsGKsTl~~   18 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVE   18 (214)
T ss_dssp             EEEEEEEEEEHHHHHH
T ss_pred             EEEEcCCCCCHHHHHH
Confidence            6789999999999996

>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=92.72  E-value=0.01  Score=51.76  Aligned_cols=26  Identities=31%  Similarity=0.600  Sum_probs=20.5

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ....-+.|.||+|||||||.+.++|.
T Consensus        24 ~~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           24 ESGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCccHHHHHHHHHcC
Confidence            33344668999999999999877774

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.68  E-value=0.031  Score=58.77  Aligned_cols=35  Identities=23%  Similarity=0.288  Sum_probs=29.4

Q ss_pred             cccCChHHHHHcC---CCCCceeEEEcCCCCCCCcccc
Q psy7782          16 LPLTHPEYYEEMG---IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        16 ~~l~~~~~~~~~g---~~~~~giLl~GppGtGKT~la~   50 (225)
                      .|...+++..-+|   +.+.+-++++||||+|||+||.
T Consensus       364 I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaL  401 (2050)
T 3cmu_A          364 ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTL  401 (2050)
T ss_dssp             ECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHH
T ss_pred             eeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHH
Confidence            4446778887775   8889999999999999999984

>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=92.68  E-value=0.017  Score=45.64  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=19.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ....+++.|++|+|||+|+.+.++
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~   34 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTT   34 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999965444

>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=92.66  E-value=0.016  Score=49.60  Aligned_cols=24  Identities=17%  Similarity=0.077  Sum_probs=18.2

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+.=+-|.||+|+||||+++.++|
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHh
Confidence            334456899999999999974444

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.65  E-value=0.019  Score=47.96  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=21.0

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      ..-+.|.||.|+|||||.+.++|..
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3446799999999999999888863

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=92.60  E-value=0.024  Score=46.33  Aligned_cols=17  Identities=29%  Similarity=0.266  Sum_probs=14.0

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =++++||||+|||+++.
T Consensus        14 i~litG~mGsGKTT~ll   30 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELI   30 (223)
T ss_dssp             EEEEECSTTSCHHHHHH
T ss_pred             EEEEECCCCCcHHHHHH
Confidence            34678999999999773

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=92.60  E-value=0.015  Score=45.49  Aligned_cols=33  Identities=12%  Similarity=0.201  Sum_probs=21.0

Q ss_pred             HHcCCCCCceeEEEcCCCCCCCcccccccCCce
Q psy7782          25 EEMGIKPPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        25 ~~~g~~~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      +.+.-...--|++.|++|+|||+|+.+..+..+
T Consensus        21 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~   53 (199)
T 2p5s_A           21 KSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEF   53 (199)
T ss_dssp             -------CEEEEEESSTTSSHHHHHHHHHHCCC
T ss_pred             CCcCcCCCeEEEEECcCCCCHHHHHHHHHhCCC
Confidence            333334456889999999999999976655443

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.59  E-value=0.024  Score=46.60  Aligned_cols=17  Identities=41%  Similarity=0.597  Sum_probs=15.1

Q ss_pred             ceeEEEcCCCCCCCccc
Q psy7782          33 KGVILYGPPGTGKTLPF   49 (225)
Q Consensus        33 ~giLl~GppGtGKT~la   49 (225)
                      -.+++.|+||||||+++
T Consensus         7 l~I~~~~kgGvGKTt~a   23 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAM   23 (228)
T ss_dssp             EEEEEESSTTSSHHHHH
T ss_pred             EEEEEECCCCCcHHHHH
Confidence            35899999999999986

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=92.56  E-value=0.024  Score=54.66  Aligned_cols=17  Identities=47%  Similarity=0.821  Sum_probs=14.6

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -.+++||||||||+++.
T Consensus       373 ~~lI~GppGTGKT~ti~  389 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSA  389 (800)
T ss_dssp             EEEEECCTTSCHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHH
Confidence            46899999999999764

>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=92.53  E-value=0.033  Score=42.40  Aligned_cols=27  Identities=19%  Similarity=0.137  Sum_probs=22.9

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCce
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ...-+++.|++|+|||+|..+..+..+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~~~   43 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIGEV   43 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCc
Confidence            456899999999999999988777665

>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=92.52  E-value=0.017  Score=51.52  Aligned_cols=25  Identities=36%  Similarity=0.790  Sum_probs=19.2

Q ss_pred             CCCce-eEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKG-VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~g-iLl~GppGtGKT~la~~~~~   54 (225)
                      ..+.| +++.||+|+||||+.+++++
T Consensus       164 ~~~ggii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          164 KRPHGIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             TSSSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             HhcCCeEEEECCCCCCHHHHHHHHHh
Confidence            34455 57999999999999875544

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=92.51  E-value=0.025  Score=52.82  Aligned_cols=19  Identities=37%  Similarity=0.602  Sum_probs=15.7

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+-+++.||||||||+++.
T Consensus       164 ~~~~vi~G~pGTGKTt~l~  182 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVA  182 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHH
Confidence            3568999999999998653

>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=92.50  E-value=0.017  Score=43.01  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..+++.|++|+|||+|+.+..+..+
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~~   29 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDEF   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCcc
Confidence            4689999999999999986665544

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.50  E-value=0.019  Score=42.97  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|++|+|||+|+.+..+..+
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~~   28 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKGTF   28 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            588999999999999987666443

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=92.48  E-value=0.027  Score=46.42  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=17.8

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      .+.=|.|.|++|+||||+++..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L   44 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNIL   44 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTT
T ss_pred             CceEEEEECCCCCCHHHHHHHH
Confidence            3456789999999999998743

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=92.47  E-value=0.02  Score=52.34  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=20.4

Q ss_pred             CCCCCceeEEEcCCCCCCCccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      ++.+..-++|.||+|||||||++.
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTL~~~   58 (525)
T 1tf7_A           35 GLPIGRSTLVSGTSGTGKTLFSIQ   58 (525)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHH
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHH
Confidence            455667789999999999999986

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=92.47  E-value=0.014  Score=43.60  Aligned_cols=24  Identities=13%  Similarity=0.043  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.+++.|++|+|||+|+.+..+..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999997665543

>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=92.46  E-value=0.018  Score=42.87  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.+++.|+||+|||+|+.+..+..+
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~~   28 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGTF   28 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCC
Confidence            3589999999999999876554333

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.46  E-value=0.023  Score=43.63  Aligned_cols=25  Identities=28%  Similarity=0.448  Sum_probs=20.8

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-+.|.|++|+|||+|..+.++..+
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~~~   32 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGENV   32 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTCE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4688999999999999987776543

>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=92.46  E-value=0.019  Score=43.15  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=18.4

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      -+++.|+||+|||+|+.+.++.
T Consensus         4 ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4789999999999999866553

>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=92.46  E-value=0.017  Score=51.16  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCCc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .+..-+.|.||+|||||||.+.++|..
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            344456789999999999999888853

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.42  E-value=0.028  Score=42.54  Aligned_cols=28  Identities=21%  Similarity=0.175  Sum_probs=22.2

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCcee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ...-|++.|++|+|||+|+.+..+..+.
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~~~   34 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSKVT   34 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTCSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccc
Confidence            4567899999999999999866665443

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=92.37  E-value=0.032  Score=48.02  Aligned_cols=29  Identities=31%  Similarity=0.434  Sum_probs=21.1

Q ss_pred             CCceeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      .++-+++.||+|+|||++|..   ..+..+++
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~~~iis   40 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILPVELIS   40 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSCEEEEE
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCCCcEEe
Confidence            346788999999999999963   23444544

>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=92.37  E-value=0.016  Score=42.91  Aligned_cols=24  Identities=21%  Similarity=0.422  Sum_probs=19.5

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .+++.|++|+|||+++.+..+..+
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~~   28 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNHF   28 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcC
Confidence            589999999999999976655443

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.34  E-value=0.016  Score=43.15  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -+++.|++|+|||+++.+..+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999997665543

>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=92.30  E-value=0.02  Score=48.60  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=20.1

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+.|.||.|+|||||.+.++|.
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            344679999999999999988884

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=92.26  E-value=0.027  Score=54.36  Aligned_cols=17  Identities=47%  Similarity=0.821  Sum_probs=14.6

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -.|++||||||||+++.
T Consensus       377 ~~lI~GppGTGKT~~i~  393 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSA  393 (802)
T ss_dssp             EEEEECSTTSSHHHHHH
T ss_pred             CEEEECCCCCCHHHHHH
Confidence            46899999999999764

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=92.24  E-value=0.058  Score=53.24  Aligned_cols=40  Identities=20%  Similarity=0.285  Sum_probs=28.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|-++.++.|.+.+...           -...+-+.++|++|.|||+||+.
T Consensus       127 vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~  166 (1249)
T 3sfz_A          127 VTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAE  166 (1249)
T ss_dssp             CCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHH
Confidence            46677777777776431           12345678999999999999963

>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=92.22  E-value=0.02  Score=43.70  Aligned_cols=24  Identities=21%  Similarity=0.434  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|++|+|||+|+.+..+..+
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~~   29 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNHF   29 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCC
Confidence            589999999999999976655444

>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=92.19  E-value=0.017  Score=43.75  Aligned_cols=24  Identities=29%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.+++.|+||+|||+|..+..+..
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999997555433

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=92.17  E-value=0.02  Score=47.03  Aligned_cols=27  Identities=30%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~~   60 (225)
                      .+-|.||||+||||+|+.   ..|.+.++.
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            345779999999999973   345555543

>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=92.17  E-value=0.021  Score=49.19  Aligned_cols=25  Identities=32%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+..-+++.||+|+||||+++.++|
T Consensus       169 ~~g~~v~i~G~~GsGKTTll~~l~g  193 (330)
T 2pt7_A          169 AIGKNVIVCGGTGSGKTTYIKSIME  193 (330)
T ss_dssp             HHTCCEEEEESTTSCHHHHHHHGGG
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456789999999999999876555

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.17  E-value=0.017  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.315  Sum_probs=19.9

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .-.|++.|++|+|||+|+.+..+..
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3578999999999999997555433

>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=92.16  E-value=0.018  Score=44.44  Aligned_cols=20  Identities=25%  Similarity=0.240  Sum_probs=16.3

Q ss_pred             eeEEEcCCCCCCCccccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~   53 (225)
                      =.+|+||.|+|||+++.++.
T Consensus        28 ~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            34699999999999987543

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=92.15  E-value=0.066  Score=49.08  Aligned_cols=42  Identities=19%  Similarity=0.188  Sum_probs=29.0

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      |-++.++.|.+.+...          +-...+-+.++|++|.|||+||...+
T Consensus       132 GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~  173 (549)
T 2a5y_B          132 IREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQAL  173 (549)
T ss_dssp             CCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHH
Confidence            5666677776666331          11234678899999999999997444

>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=92.15  E-value=0.037  Score=43.33  Aligned_cols=22  Identities=23%  Similarity=0.075  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ...-+.+.||+|+|||+++..+
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l   26 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKL   26 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHH
Confidence            3457889999999999998643

>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=92.14  E-value=0.017  Score=43.22  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=18.6

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .+++.|++|+|||+|+.+..+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999987554433

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=92.09  E-value=0.015  Score=53.22  Aligned_cols=27  Identities=33%  Similarity=0.391  Sum_probs=21.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++.+..-+++.||||+|||+|++..++
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g  303 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVE  303 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence            566666789999999999999974443

>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=92.09  E-value=0.018  Score=43.19  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.+++.|++|+|||+|+.+..+..+
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~~   31 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDSF   31 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCC
Confidence            3689999999999999976655443

>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=92.09  E-value=0.016  Score=43.49  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=19.7

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.+++.|++|+|||+|+.+..+..+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~   28 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDKF   28 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCC
Confidence            3589999999999999976555443

>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=92.05  E-value=0.011  Score=51.72  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=20.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ....-+.|.||+|||||||.+.++|.
T Consensus        29 ~~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           29 ENGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            33344669999999999999877773

>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=92.03  E-value=0.028  Score=50.36  Aligned_cols=20  Identities=30%  Similarity=0.456  Sum_probs=17.1

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      ++-+++.||||+||||++.+
T Consensus        99 ~~vI~ivG~~GvGKTTla~~  118 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAK  118 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            45789999999999998853

>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=91.93  E-value=0.019  Score=43.07  Aligned_cols=24  Identities=25%  Similarity=0.117  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.+++.|++|+|||+|+.+..+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999997555433

>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=91.92  E-value=0.036  Score=43.12  Aligned_cols=36  Identities=14%  Similarity=0.054  Sum_probs=25.3

Q ss_pred             HHHHcCCCCCceeEEEcCCCCCCCcccccccCCcee
Q psy7782          23 YYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        23 ~~~~~g~~~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      +++.+--...--|++.|+||+|||+|+.+..+..+.
T Consensus        20 ~~~~~~~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~   55 (192)
T 2b6h_A           20 LFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIV   55 (192)
T ss_dssp             GGGGTTTTSCEEEEEEESTTSSHHHHHHHHCSSCCE
T ss_pred             HHHHhccCCccEEEEECCCCCCHHHHHHHHHhCCcc
Confidence            333333234457899999999999999877665544

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.86  E-value=0.016  Score=50.49  Aligned_cols=26  Identities=19%  Similarity=0.419  Sum_probs=21.5

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+++.||+|+||||+++.+++
T Consensus       172 i~~G~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          172 VQLERVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             HHTTCCEEEEESSSSCHHHHHHHHHT
T ss_pred             HhcCCEEEEECCCCCCHHHHHHHHHh
Confidence            45667889999999999999986655

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=91.83  E-value=0.036  Score=49.74  Aligned_cols=32  Identities=25%  Similarity=0.180  Sum_probs=23.3

Q ss_pred             CChHHHHHc-CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM-GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~-g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..+++-.-+ |+.+..=+++.|+||+|||++|-
T Consensus       183 G~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal  215 (444)
T 3bgw_A          183 GFTELDRMTYGYKRRNFVLIAARPSMGKTAFAL  215 (444)
T ss_dssp             SCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHH
T ss_pred             CcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHH
Confidence            344444333 56666778999999999999984

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.82  E-value=0.02  Score=43.32  Aligned_cols=24  Identities=17%  Similarity=0.109  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --+++.|+||+|||+|+.+..+..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            468999999999999997655533

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=91.70  E-value=0.047  Score=46.12  Aligned_cols=17  Identities=18%  Similarity=0.255  Sum_probs=12.4

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =|.+.||+|+||||+|+
T Consensus         7 iIgItG~sGSGKSTva~   23 (290)
T 1a7j_A            7 IISVTGSSGAGTSTVKH   23 (290)
T ss_dssp             EEEEESCC---CCTHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47799999999999997

>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=91.70  E-value=0.03  Score=43.20  Aligned_cols=28  Identities=14%  Similarity=0.150  Sum_probs=21.6

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCcee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ...-+++.|++|+|||+|..+..+..+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~~~   49 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRKNL   49 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCc
Confidence            4567999999999999999877776543

>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=91.68  E-value=0.025  Score=43.04  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ...|++.|++|+|||+|+.+..+..+
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~~   43 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDEF   43 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCC
Confidence            35789999999999999986665544

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.67  E-value=0.033  Score=43.03  Aligned_cols=29  Identities=17%  Similarity=0.146  Sum_probs=22.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~~   59 (225)
                      ...-|++.|++|+|||+|+.+..+..+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~~~~   44 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQSSS   44 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC---
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCcc
Confidence            34578999999999999998777766554

>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=91.65  E-value=0.044  Score=43.20  Aligned_cols=26  Identities=27%  Similarity=0.359  Sum_probs=21.4

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--|++.|++|+|||+|+.+.++..+
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~~~~   36 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLDGRF   36 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTTCST
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34789999999999999988776443

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.65  E-value=0.035  Score=48.30  Aligned_cols=27  Identities=19%  Similarity=0.196  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      .-|.+.||+|+|||++|..   ..+..+++
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis   37 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIIS   37 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEE
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceec
Confidence            4678999999999999963   33444444

>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=91.64  E-value=0.042  Score=49.19  Aligned_cols=23  Identities=17%  Similarity=0.431  Sum_probs=20.0

Q ss_pred             eEEEcCCCCCCCcccccccCCce
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      +.|.||+|+|||||.+.++|..+
T Consensus        45 vaLvG~nGaGKSTLln~L~G~~l   67 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNTKF   67 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCccc
Confidence            67999999999999998888743

>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=91.62  E-value=0.023  Score=43.52  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|++|+|||+|+.+..+..+
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~~   26 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKKV   26 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcCC
Confidence            478999999999999987766553

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=91.60  E-value=0.039  Score=47.41  Aligned_cols=19  Identities=37%  Similarity=0.434  Sum_probs=17.3

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||+|+|||++|.
T Consensus       147 g~gvli~G~sG~GKStlal  165 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECAL  165 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            5899999999999999884

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=91.57  E-value=0.034  Score=47.91  Aligned_cols=19  Identities=16%  Similarity=0.065  Sum_probs=15.8

Q ss_pred             ceeEEEcCCCCCCCccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~   51 (225)
                      .=+-|.||+||||||+++.
T Consensus        93 ~iigI~GpsGSGKSTl~~~  111 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRV  111 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHH
Confidence            3466889999999999973

>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=91.56  E-value=0.028  Score=43.78  Aligned_cols=24  Identities=17%  Similarity=0.120  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.|++.|++|+|||+|+.+..+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999997555543

>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=91.55  E-value=0.032  Score=46.22  Aligned_cols=26  Identities=38%  Similarity=0.489  Sum_probs=21.0

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      .-++|.|+||+|||+|+.+.+|..+.
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g~~~~   31 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTGTKQY   31 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTTCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCCCc
Confidence            35889999999999999877765543

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=91.55  E-value=0.021  Score=42.61  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.+++.|++|+|||+|+.+..+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            368999999999999997655433

>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=91.52  E-value=0.051  Score=41.78  Aligned_cols=26  Identities=19%  Similarity=0.218  Sum_probs=21.4

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..-+++.|+||+|||+|..+..+..+
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~~~   41 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASEDI   41 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCC
Confidence            45789999999999999987776543

>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=91.52  E-value=0.02  Score=48.77  Aligned_cols=22  Identities=14%  Similarity=0.071  Sum_probs=17.2

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      .-+-|.||+|+||||+++.+++
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999974433

>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=91.51  E-value=0.022  Score=43.59  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=18.6

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      -.|++.|++|+|||+|+.+..+
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999975554

>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=91.51  E-value=0.017  Score=50.25  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=19.4

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ..-+.|.||+|||||||++.++|
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999986665

>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=91.48  E-value=0.03  Score=45.34  Aligned_cols=27  Identities=26%  Similarity=0.470  Sum_probs=21.6

Q ss_pred             CceeEEEcCCCCCCCcccccccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ..-|+|.|++|+|||+|+.+.+|..++
T Consensus        29 ~~~i~lvG~~g~GKStlin~l~g~~~~   55 (239)
T 3lxx_A           29 QLRIVLVGKTGAGKSATGNSILGRKVF   55 (239)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTSCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHcCCCcC
Confidence            357899999999999999866665543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=91.48  E-value=0.043  Score=42.56  Aligned_cols=23  Identities=22%  Similarity=0.118  Sum_probs=4.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      --|++.|++|+|||+|+.+..+.
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999877765

>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=91.42  E-value=0.027  Score=41.98  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=19.4

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .+++.|++|+|||+|+.+..+..+
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~~   28 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGIF   28 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            588999999999999976655433

>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=91.40  E-value=0.021  Score=43.16  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999997655433

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=91.40  E-value=0.031  Score=50.72  Aligned_cols=23  Identities=9%  Similarity=0.082  Sum_probs=19.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..-+++.|+||+|||++|.
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal  260 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVR  260 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHH
T ss_pred             ccCCCeEEEEeecCCCCchHHHH
Confidence            56677778999999999999884

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=91.38  E-value=0.02  Score=48.03  Aligned_cols=21  Identities=19%  Similarity=0.434  Sum_probs=17.2

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      .+.|.||+|+|||||.+.++|
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            467889999999999875555

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.36  E-value=0.024  Score=43.60  Aligned_cols=25  Identities=16%  Similarity=0.112  Sum_probs=19.9

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .--|++.|++|+|||+|+.+.++..
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            3468999999999999997555543

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=91.34  E-value=0.037  Score=50.59  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=18.2

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .++-|++.|+||+||||++.+.+
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35678999999999999987555

>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=91.33  E-value=0.028  Score=42.42  Aligned_cols=26  Identities=19%  Similarity=0.212  Sum_probs=21.0

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.+++.|++|+|||+|+.+..+..+
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~~   40 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKKF   40 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCC
Confidence            45789999999999999976655444

>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=91.29  E-value=0.024  Score=43.82  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.|++.|++|+|||+|+.+..+..+
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~~   50 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNEF   50 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCC
Confidence            4789999999999999975555433

>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=91.23  E-value=0.044  Score=47.23  Aligned_cols=18  Identities=39%  Similarity=0.453  Sum_probs=15.7

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +-+++.||+|+|||++|.
T Consensus         4 ~~i~i~GptgsGKt~la~   21 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSV   21 (322)
T ss_dssp             EEEEEECCTTSCHHHHHH
T ss_pred             cEEEEECCCcCCHHHHHH
Confidence            357899999999999986

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.18  E-value=0.035  Score=42.55  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=20.9

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      ..-+++.|++|+|||+|+.+..+..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            3478999999999999998776655

>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=91.17  E-value=0.031  Score=41.93  Aligned_cols=27  Identities=19%  Similarity=0.156  Sum_probs=21.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCce
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ....+++.|++|+|||+|+.+..+..+
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~   32 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEV   32 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCC
Confidence            345789999999999999976554443

>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=91.15  E-value=0.043  Score=46.58  Aligned_cols=21  Identities=38%  Similarity=0.506  Sum_probs=16.9

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      +.-+++.||+|+|||+++...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~l  118 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKL  118 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            456778999999999988633

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=91.11  E-value=0.026  Score=42.83  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.+++.|++|+|||+|+.+..+..
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999987555433

>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=91.08  E-value=0.029  Score=43.14  Aligned_cols=25  Identities=20%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+.++..+
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~~   46 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNHF   46 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCC
Confidence            4689999999999999986665444

>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=91.08  E-value=0.037  Score=43.28  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.7

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      --|++.|+||+|||+|+.+.++.
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~~   46 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGGL   46 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCCE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhc
Confidence            46899999999999999877654

>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=91.07  E-value=0.029  Score=43.94  Aligned_cols=26  Identities=15%  Similarity=0.157  Sum_probs=20.2

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..-+++.|+||+|||+|..+..+-.+
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~~~   50 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDDRL   50 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC--
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34689999999999999987766443

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=91.06  E-value=0.04  Score=43.91  Aligned_cols=26  Identities=15%  Similarity=0.128  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      -|.+.||+|||||++++   ...|.+|++
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            57899999999999997   446788874

>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=90.99  E-value=0.031  Score=43.29  Aligned_cols=25  Identities=20%  Similarity=0.304  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+..+..|
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~~   46 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKRF   46 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSC
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCCC
Confidence            3689999999999999976655443

>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=90.98  E-value=0.036  Score=46.37  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .-+.|.|+||+|||+|..+.+|..
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~~   27 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGHN   27 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCC
Confidence            357899999999999998777754

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=90.95  E-value=0.028  Score=50.01  Aligned_cols=41  Identities=15%  Similarity=0.104  Sum_probs=27.0

Q ss_pred             CCCCceeEEEcCCCCCCCccccccc------CCceeeccCCCCCCcc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPAL------GYHYYCRGAGSNSDKK   69 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~------~~~~~~~~~~~~~~~~   69 (225)
                      +....-++++||||||||++++.++      +..+..++++-|.+-+
T Consensus       171 i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGER~~  217 (422)
T 3ice_A          171 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPE  217 (422)
T ss_dssp             CBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESSCHH
T ss_pred             ecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecCChH
Confidence            3445678999999999999986332      2344555555553333

>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=90.94  E-value=0.032  Score=42.54  Aligned_cols=26  Identities=15%  Similarity=0.213  Sum_probs=20.3

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--|++.|++|+|||+|+.+..+..+
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~~   43 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKIF   43 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCC
Confidence            34789999999999999976554433

>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=90.94  E-value=0.025  Score=43.25  Aligned_cols=22  Identities=23%  Similarity=0.357  Sum_probs=18.4

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      --|++.|++|+|||+|+.+..+
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~   32 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIE   32 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999975544

>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=90.92  E-value=0.03  Score=42.32  Aligned_cols=25  Identities=16%  Similarity=0.258  Sum_probs=20.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..|++.|++|+|||+|+.+..+..+
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~~~   34 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQSYF   34 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcC
Confidence            4789999999999999976655443

>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=90.91  E-value=0.031  Score=43.43  Aligned_cols=25  Identities=24%  Similarity=0.211  Sum_probs=19.9

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .--|++.|++|+|||+|+.+..+..
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            3578999999999999987555443

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=90.89  E-value=0.033  Score=51.03  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=17.6

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      +.-|+|.|+||+|||++|+..
T Consensus        35 ~~lIvlvGlpGSGKSTia~~L   55 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKL   55 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            456789999999999999743

>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=90.88  E-value=0.038  Score=42.28  Aligned_cols=26  Identities=19%  Similarity=0.212  Sum_probs=21.5

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      ..-.+++.|+||+|||+|+.+..+..
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            45679999999999999998766644

>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=90.87  E-value=0.03  Score=42.82  Aligned_cols=24  Identities=25%  Similarity=0.443  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .-+.|.|+||+|||+|..+.++..
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            458899999999999998777654

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=90.86  E-value=0.051  Score=48.65  Aligned_cols=20  Identities=30%  Similarity=0.305  Sum_probs=16.8

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ++.-+++.||+|+||||++.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~  116 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAA  116 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            45667889999999999875

>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=90.86  E-value=0.029  Score=43.45  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=19.8

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+.++..|
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~~   45 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGTY   45 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999975554443

>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=90.85  E-value=0.025  Score=43.45  Aligned_cols=26  Identities=15%  Similarity=0.161  Sum_probs=20.2

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--+++.|+||+|||+|+.+..+..+
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~~   32 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDCF   32 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34689999999999999976555433

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=90.80  E-value=0.025  Score=48.42  Aligned_cols=26  Identities=27%  Similarity=0.545  Sum_probs=21.0

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+-|.||+|+|||||++.++|.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcC
Confidence            34455678999999999999977773

>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=90.80  E-value=0.028  Score=43.31  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+..+..+
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~~   47 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDSF   47 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCC
Confidence            4789999999999999976555443

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=90.80  E-value=0.031  Score=49.09  Aligned_cols=25  Identities=16%  Similarity=0.053  Sum_probs=20.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+-|.||+|+|||||.+.++|.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcC
Confidence            3344568899999999999988774

>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=90.79  E-value=0.04  Score=42.79  Aligned_cols=27  Identities=19%  Similarity=0.356  Sum_probs=21.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCce
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..-.|++.|++|+|||+|+.+..+..+
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~~   53 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKRF   53 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCC
Confidence            345789999999999999976655444

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=90.75  E-value=0.045  Score=43.78  Aligned_cols=27  Identities=26%  Similarity=0.285  Sum_probs=22.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ..-|++.|++|+|||+|+.+.++..+.
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~~~~   55 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRANVD   55 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTTCEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCc
Confidence            357899999999999999877776654

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=90.74  E-value=0.029  Score=42.54  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.+++.|++|+|||+|+.+..+..+
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~~   35 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGAF   35 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCC
Confidence            34689999999999999976555444

>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=90.74  E-value=0.042  Score=45.48  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=21.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      +-|.|.|+||+|||+|+.+..|..+.
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~   27 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQR   27 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCC
Confidence            35889999999999999877776543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.65  E-value=0.042  Score=42.60  Aligned_cols=26  Identities=27%  Similarity=0.333  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCcee
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -.|++.|++|+|||+|+.+..+..+.
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~~~   52 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDTFC   52 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC----
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            35899999999999999877765543

>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=90.60  E-value=0.045  Score=42.19  Aligned_cols=25  Identities=20%  Similarity=0.145  Sum_probs=21.3

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .--|++.|++|+|||+|..+..+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578999999999999998777765

>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=90.57  E-value=0.042  Score=43.31  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=19.6

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~~   49 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDNK   49 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999997665533

>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=90.54  E-value=0.032  Score=42.47  Aligned_cols=25  Identities=12%  Similarity=0.181  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-|++.|++|+|||+|+.+..+..+
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~~~   31 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEGQF   31 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCC
Confidence            4689999999999999976654433

>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA interaction, OB fold; NMR {Escherichia coli} SCOP: b.40.4.5

Probab=90.52  E-value=0.71  Score=30.46  Aligned_cols=47  Identities=19%  Similarity=0.112  Sum_probs=40.0

Q ss_pred             eeeEEEEEecCCeEEEEccCCCeEEEeecCCCCc--CCCCCCCeEEecC
Q psy7782         161 SVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDK--DQLEPGCSVLLNH  207 (225)
Q Consensus       161 ~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~--~~L~pG~~V~ln~  207 (225)
                      ..|.|++.+..+.+.|...+|..+.+.+....-.  -.+.+||+|.+..
T Consensus         8 ~~G~Vi~~lg~~~y~V~~~~g~~~~~~i~Gk~Rk~~i~i~vGD~V~ve~   56 (71)
T 1ah9_A            8 MQGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVEL   56 (71)
T ss_dssp             CCEEEEEECSSSEEEEEETTSCEEEEEECSSGGGTTCCCCTTCEECCEE
T ss_pred             EEEEEEEEeCCcEEEEEECCCCEEEEEEcceEeccCccCCCCCEEEEEE
Confidence            3699999999999999888899999999998765  5567899998853

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=90.49  E-value=0.031  Score=43.02  Aligned_cols=24  Identities=21%  Similarity=0.229  Sum_probs=19.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999997555433

>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=90.43  E-value=0.033  Score=43.39  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .--|++.|++|+|||+|+.+..+
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~   30 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVN   30 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHc
Confidence            35789999999999999865444

>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=90.43  E-value=0.032  Score=42.86  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=18.3

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      --|++.|++|+|||+|+.+..+
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~   37 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTD   37 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999875444

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=90.38  E-value=0.023  Score=43.12  Aligned_cols=25  Identities=20%  Similarity=0.185  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --+++.|+||+|||+|+.+.++..|
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~~   32 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGSY   32 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCC
Confidence            4689999999999999986665444

>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=90.37  E-value=0.052  Score=43.87  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=18.0

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      =+-|-||.|+||||+++..++.
T Consensus        22 ~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           22 TVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            3568899999999999866654

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=90.35  E-value=0.047  Score=46.27  Aligned_cols=23  Identities=22%  Similarity=0.143  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .-+.|.||+|+|||||.+.++|.
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CeEEEECCCCCcHHHHHHHhccc
Confidence            44678999999999999877773

>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=90.32  E-value=0.039  Score=41.94  Aligned_cols=21  Identities=19%  Similarity=0.192  Sum_probs=17.7

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      .|++.|++|+|||+|+.+..+
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            589999999999999965544

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=90.28  E-value=0.074  Score=42.99  Aligned_cols=19  Identities=37%  Similarity=0.504  Sum_probs=16.0

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+-+++.||+|||||+++.
T Consensus        76 g~~~~i~g~TGsGKTt~~~   94 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVP   94 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHH
Confidence            4678999999999998653

>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=90.21  E-value=0.035  Score=42.78  Aligned_cols=24  Identities=21%  Similarity=0.103  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            478999999999999987655433

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.17  E-value=0.035  Score=43.46  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=20.2

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      ..--|++.|+||+|||+|+.+..+..
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34578999999999999997555443

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=90.17  E-value=0.065  Score=45.35  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=17.8

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      .++-+.+.||+|+||||++...+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la  119 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLA  119 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34567788999999999986433

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=90.16  E-value=0.1  Score=45.73  Aligned_cols=34  Identities=18%  Similarity=0.182  Sum_probs=25.9

Q ss_pred             CCceeEEEcCCCCCCCccccc------ccCCceeeccCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP------ALGYHYYCRGAGS   64 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~------~~~~~~~~~~~~~   64 (225)
                      ....+|++|++|||||++|++      ..+.+|+.++.+.
T Consensus       159 ~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~  198 (387)
T 1ny5_A          159 AECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVAS  198 (387)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTT
T ss_pred             CCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCC
Confidence            456789999999999999962      2346788777554

>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=90.15  E-value=0.032  Score=43.22  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=19.6

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -.|++.|++|+|||+|+.+..+..
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999997655544

>1j3b_A ATP-dependent phosphoenolpyruvate carboxykinase; adenosine triphosphate, T thermophilus; 2.00A {Thermus thermophilus} SCOP: c.91.1.1 c.109.1.1 PDB: 1xkv_A* 2pc9_A*

Probab=90.11  E-value=0.067  Score=49.11  Aligned_cols=20  Identities=30%  Similarity=0.441  Sum_probs=17.1

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      ...++|+||+|||||+|+..
T Consensus       225 g~~~~ffGlSGtGKTtLs~~  244 (529)
T 1j3b_A          225 GDVAVFFGLSGTGKTTLSTD  244 (529)
T ss_dssp             CCEEEEEECTTSCHHHHTCB
T ss_pred             CcEEEEEccccCChhhHhhc
Confidence            35789999999999999863

>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=90.11  E-value=0.045  Score=42.07  Aligned_cols=28  Identities=21%  Similarity=0.118  Sum_probs=22.5

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCcee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ..--|++.|++|+|||+|..+..+..+.
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~   42 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV   42 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4467999999999999999877655444

>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic initiation facto SGC, structural genomics; 1.80A {Cryptosporidium parvum iowa II}

Probab=90.08  E-value=0.43  Score=34.86  Aligned_cols=62  Identities=13%  Similarity=0.147  Sum_probs=48.8

Q ss_pred             CCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCC-cCCCCCCCeEEecCCc-----ceeeeccCC
Q psy7782         157 GTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVD-KDQLEPGCSVLLNHKV-----HAVVGVLSD  218 (225)
Q Consensus       157 ~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd-~~~L~pG~~V~ln~~~-----~~Iv~vLp~  218 (225)
                      ......|+|++.+..+.+.|...+|..|.+.+...+- .-.+.+||.|.+....     =.|+.+++.
T Consensus        30 ~~~e~~G~Vi~~lgn~~y~V~~~dG~~~l~~i~GK~Rk~I~i~~GD~V~ve~~~~~~~kG~I~~~~~r   97 (117)
T 2oqk_A           30 EEGQEYGQVQRMLGNGRLDAYCFDGQKRLCHIRGKMRKKVWVNPGDIVLVSLRDFQDSKGDIILKYTP   97 (117)
T ss_dssp             CTTEEEEEEEEEEETTEEEEEETTSCEEEEECCHHHHHHSCCCTTCEEEEEECTTCTTEEEEEEECCH
T ss_pred             CCCEEEEEEEEEcCCCEEEEEeCCCCEEEEEEcCceecCCcCCCCCEEEEEEEcCCCCeEEEEEEech
Confidence            3456789999999999999988899999999998665 4666799999996432     246666664

>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=89.57  E-value=0.057  Score=42.16  Aligned_cols=26  Identities=15%  Similarity=0.170  Sum_probs=20.8

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.|++.|+||+|||+|+.+..+..+
T Consensus        30 ~~ki~v~G~~~~GKSsli~~l~~~~~   55 (204)
T 3th5_A           30 AIKCVVVGDGAVGKTCLLISYTTNAF   55 (204)
Confidence            34689999999999999977665444

>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=90.06  E-value=0.036  Score=42.08  Aligned_cols=26  Identities=15%  Similarity=0.103  Sum_probs=20.4

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.+++.|++|+|||+|+.+..+..+
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~~   33 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNTF   33 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCC
Confidence            45789999999999999976554443

>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=90.05  E-value=0.046  Score=47.85  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=19.0

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .-+.|.||||+|||||++.++|.
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            45779999999999999866663

>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=90.04  E-value=0.036  Score=42.82  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=19.8

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+..+..+
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~~   46 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKRF   46 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCC
Confidence            3689999999999999976555443

>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=90.02  E-value=0.036  Score=42.44  Aligned_cols=26  Identities=23%  Similarity=0.143  Sum_probs=21.7

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.|++.|++|+|||+|..+..+..+
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~~~   46 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMNEV   46 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTTSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34789999999999999987776555

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=90.01  E-value=0.11  Score=39.85  Aligned_cols=29  Identities=17%  Similarity=0.025  Sum_probs=23.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~~   59 (225)
                      ..-.+++.|++|+|||+|..+..+..+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~~~~~~   49 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHLGDVVT   49 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSCCEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCC
Confidence            45679999999999999998776655544

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=89.99  E-value=0.065  Score=43.78  Aligned_cols=18  Identities=33%  Similarity=0.416  Sum_probs=12.3

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=|.|-||+|+||||+++
T Consensus        26 ~~I~~eG~~GsGKsT~~~   43 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQ   43 (227)
T ss_dssp             CEEEEECCC---CHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            346788999999999886

>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=89.97  E-value=0.041  Score=43.02  Aligned_cols=26  Identities=19%  Similarity=0.345  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-.|++.|++|+|||+|+.+..+..+
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~~   50 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIENKF   50 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC---
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCC
Confidence            35789999999999999976655443

>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=89.96  E-value=0.087  Score=46.01  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+.|.|+||+|||+|..+.++..+
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~  204 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQ  204 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCc
Confidence            478999999999999987777554

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=89.92  E-value=0.048  Score=42.35  Aligned_cols=26  Identities=23%  Similarity=0.184  Sum_probs=19.8

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--|++.|++|+|||+|+.+..+..+
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~~   45 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNGY   45 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC---
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCC
Confidence            45789999999999999986666544

>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=89.87  E-value=0.065  Score=39.85  Aligned_cols=23  Identities=17%  Similarity=0.117  Sum_probs=18.4

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -+++.|++|+|||+|+.+..+..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999997655433

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=89.86  E-value=0.044  Score=49.15  Aligned_cols=24  Identities=17%  Similarity=0.252  Sum_probs=19.0

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ...-+.|.||+|||||+|++.++|
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag  179 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMAR  179 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            334467999999999999986655

>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=89.85  E-value=0.038  Score=42.64  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=19.9

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+..+..+
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~~   47 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQF   47 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCCC
Confidence            4689999999999999976655433

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=89.83  E-value=0.047  Score=49.17  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=18.2

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      +.-|+|.|+||+|||++++..+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La   60 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLT   60 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            4568999999999999997443

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=89.81  E-value=0.035  Score=50.17  Aligned_cols=26  Identities=23%  Similarity=0.105  Sum_probs=20.7

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +....-+.|.||.|||||||++.++|
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHH
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            44555688999999999999985555

>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=89.81  E-value=0.035  Score=43.10  Aligned_cols=25  Identities=16%  Similarity=0.147  Sum_probs=19.6

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      ..-+++.|+||+|||++..+..+-.
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3478999999999999997655533

>2olr_A Phosphoenolpyruvate carboxykinase; carbon dioxide, lyase; HET: ATP; 1.60A {Escherichia coli K12} SCOP: c.91.1.1 c.109.1.1 PDB: 1k3c_A* 1k3d_A* 1aq2_A* 2olq_A* 1os1_A* 2pxz_X* 1ayl_A* 2py7_X* 1oen_A 1ylh_A* 1ygg_A*

Probab=89.79  E-value=0.071  Score=48.97  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=16.8

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ...++|+|++|||||+|+.
T Consensus       241 g~~~lffGlSGtGKTTLs~  259 (540)
T 2olr_A          241 GDVAVFFGLSGTGKTTLST  259 (540)
T ss_dssp             SCEEEEECSTTSSHHHHHC
T ss_pred             CCEEEEEccCCCCHHHHhc
Confidence            3679999999999999985

>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=89.75  E-value=0.036  Score=43.34  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=18.2

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      --|++.|++|+|||+|+.+..+
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~   30 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSD   30 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999865444

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=89.72  E-value=0.043  Score=42.81  Aligned_cols=28  Identities=18%  Similarity=0.133  Sum_probs=21.7

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCcee
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ...-|++.|++|+|||+|+.+..+..+.
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~~~   50 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGEFS   50 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCC
Confidence            3456899999999999999866654443

>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=89.71  E-value=0.045  Score=42.33  Aligned_cols=25  Identities=16%  Similarity=0.101  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.|++.|+||+|||+|+.+..+..+
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~~   48 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGEI   48 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCC
Confidence            4789999999999999986655443

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=89.65  E-value=0.063  Score=43.30  Aligned_cols=18  Identities=39%  Similarity=0.447  Sum_probs=15.3

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=|.|-||+|+||||+++
T Consensus         7 ~~i~~eG~~gsGKsT~~~   24 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRD   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHH
Confidence            346788999999999885

>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=89.62  E-value=0.063  Score=47.89  Aligned_cols=24  Identities=17%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .+.|.||+|+|||||.+..+|..+
T Consensus        33 ~I~lvG~sGaGKSTLln~L~g~~~   56 (418)
T 2qag_C           33 TLMVVGESGLGKSTLINSLFLTDL   56 (418)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTCCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCC
Confidence            358999999999999998877655

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=89.60  E-value=0.05  Score=46.96  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=18.0

Q ss_pred             CCceeEEEcCCCCCCCccccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~   53 (225)
                      ...-+.|.||||+|||||.+..+
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            33446699999999999987554

>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=89.56  E-value=0.038  Score=43.69  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+.++..+
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~~~   53 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKDCF   53 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4689999999999999976555433

>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=89.43  E-value=0.051  Score=42.69  Aligned_cols=26  Identities=35%  Similarity=0.497  Sum_probs=20.2

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..-+++.|++|+|||+|+.+..+..|
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~~   32 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQY   32 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            35789999999999999976655443

>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=89.41  E-value=0.075  Score=41.47  Aligned_cols=18  Identities=22%  Similarity=0.135  Sum_probs=15.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-+.+.|++|+|||+++.
T Consensus         5 ~~i~i~G~sGsGKTTl~~   22 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLME   22 (169)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHH
Confidence            467899999999999885

>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=89.40  E-value=0.059  Score=44.91  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=21.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.|.|.|+||+|||+|..+.+|..+
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g~~~   28 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTGSRQ   28 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTCE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4688999999999999988877664

>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=89.31  E-value=0.058  Score=42.68  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|++|+|||+|+.+..+..+
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~~~   59 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADGAF   59 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC---
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCC
Confidence            4789999999999999987666444

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=89.23  E-value=0.071  Score=43.22  Aligned_cols=18  Identities=17%  Similarity=0.220  Sum_probs=15.9

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +-|.+.|++|+||||+++
T Consensus         3 ~~i~~~G~~g~GKtt~~~   20 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVK   20 (241)
T ss_dssp             EEEEEEECTTSSHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHH
Confidence            457899999999999986

>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=89.22  E-value=0.056  Score=48.11  Aligned_cols=19  Identities=26%  Similarity=0.392  Sum_probs=16.1

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ++-+++.||+|+|||++|.
T Consensus         2 ~~~i~i~GptgsGKttla~   20 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSI   20 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHH
Confidence            3457899999999999985

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=89.21  E-value=0.041  Score=47.83  Aligned_cols=24  Identities=13%  Similarity=0.203  Sum_probs=18.9

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ...-+.|.||+|+|||+|.+.++|
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g   93 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICN   93 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            334467999999999999985555

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=89.05  E-value=0.075  Score=45.65  Aligned_cols=19  Identities=32%  Similarity=0.473  Sum_probs=17.3

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.|++|+|||++|.
T Consensus       144 g~~vl~~G~sG~GKSt~a~  162 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETAL  162 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHH
Confidence            5799999999999999885

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=89.05  E-value=0.092  Score=48.65  Aligned_cols=19  Identities=26%  Similarity=0.548  Sum_probs=16.3

Q ss_pred             CCceeEEEcCCCCCCCccc
Q psy7782          31 PPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la   49 (225)
                      ....+++.||||||||+.+
T Consensus        21 ~~~~~lV~a~aGsGKT~~l   39 (647)
T 3lfu_A           21 PRSNLLVLAGAGSGKTRVL   39 (647)
T ss_dssp             CSSCEEEEECTTSCHHHHH
T ss_pred             CCCCEEEEECCCCCHHHHH
Confidence            4567899999999999975

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=89.04  E-value=0.13  Score=47.84  Aligned_cols=25  Identities=40%  Similarity=0.603  Sum_probs=20.6

Q ss_pred             CCCceeEEEcCCCCCCCcccccccC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ++..-+-+.||+|+||||+++..+|
T Consensus       379 ~~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          379 KPGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             CTTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhc
Confidence            3445667999999999999987777

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=89.02  E-value=0.091  Score=48.58  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=20.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+-+.||+|+||||+++..+|.
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            3445678899999999999988873

>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=89.00  E-value=0.044  Score=43.21  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=18.3

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      -.|++.|++|+|||+|+.+..+
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~   48 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQ   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4789999999999999875443

>1ytm_A Phosphoenolpyruvate carboxykinase [ATP], phosphoenolpyruvate; domain closure, nucleotide binding; HET: ATP; 2.20A {Anaerobiospirillum succiniciproducens} PDB: 1yvy_A

Probab=88.96  E-value=0.09  Score=48.27  Aligned_cols=18  Identities=39%  Similarity=0.595  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      ..++|+|++|||||+|+.
T Consensus       236 ~~~~ffGlSGtGKTTLs~  253 (532)
T 1ytm_A          236 NTAIFFGLSGTGKTTLST  253 (532)
T ss_dssp             SEEEEECCTTSSHHHHHC
T ss_pred             eEEEEEecCCCCHHHHhh
Confidence            579999999999999885

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=88.94  E-value=0.078  Score=41.87  Aligned_cols=28  Identities=11%  Similarity=0.182  Sum_probs=20.2

Q ss_pred             eEEEcCCCCCCCccccccc--CCceeeccC
Q psy7782          35 VILYGPPGTGKTLPFSPAL--GYHYYCRGA   62 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~--~~~~~~~~~   62 (225)
                      +|++|++|+|||++|...+  +.+.+++--
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~~~~~~yiaT   31 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGDAPQVLYIAT   31 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSCSSEEEEEC
T ss_pred             EEEECCCCCcHHHHHHHHHhcCCCeEEEec
Confidence            6899999999999996222  555544443

>1ii2_A Phosphoenolpyruvate carboxykinase; phosphate binding loop, lyase; 2.00A {Trypanosoma cruzi} SCOP: c.91.1.1 c.109.1.1

Probab=88.93  E-value=0.091  Score=48.18  Aligned_cols=19  Identities=32%  Similarity=0.468  Sum_probs=16.9

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ...++|+|++|||||+|+.
T Consensus       213 g~~~~ffGlSGtGKTTLs~  231 (524)
T 1ii2_A          213 GDVTVFFGLSGTGKTTLSA  231 (524)
T ss_dssp             CCEEEEECCTTSSHHHHHC
T ss_pred             CCEEEEEccCCcchhhhhh
Confidence            4688999999999999975

>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=88.92  E-value=0.046  Score=42.17  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=20.0

Q ss_pred             CceeEEEcCCCCCCCcccccccCCc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      .-.|++.|++|+|||+|+.+..+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            3578999999999999987655533

>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=88.90  E-value=0.053  Score=41.08  Aligned_cols=18  Identities=22%  Similarity=0.468  Sum_probs=15.3

Q ss_pred             eEEEcCCCCCCCcccccc
Q psy7782          35 VILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~   52 (225)
                      .+++||.|+|||++..++
T Consensus        26 ~~I~G~NGsGKStil~Ai   43 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAI   43 (149)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            479999999999988644

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=88.86  E-value=0.085  Score=40.35  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=17.1

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      --|++.|+||+|||+|++..
T Consensus        15 ~ki~vvG~~~~GKssL~~~l   34 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWI   34 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999998643

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=88.79  E-value=0.096  Score=42.32  Aligned_cols=29  Identities=28%  Similarity=0.201  Sum_probs=23.5

Q ss_pred             ceeEEEcCCCCCCCcccc--cccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFS--PALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~--~~~~~~~~~~~   61 (225)
                      -.|=|.|..|||||++++  +..|.++++..
T Consensus        10 ~~iglTGgigsGKStv~~~l~~~g~~vidaD   40 (210)
T 4i1u_A           10 YAIGLTGGIGSGKTTVADLFAARGASLVDTD   40 (210)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHTTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHCCCcEEECc
Confidence            477899999999999997  45788888543

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=88.73  E-value=0.083  Score=47.53  Aligned_cols=21  Identities=38%  Similarity=0.529  Sum_probs=16.8

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      ..+-.+++||||||||++...
T Consensus       160 ~~~v~~I~G~aGsGKTt~I~~  180 (446)
T 3vkw_A          160 SAKVVLVDGVPGCGKTKEILS  180 (446)
T ss_dssp             CSEEEEEEECTTSCHHHHHHH
T ss_pred             cccEEEEEcCCCCCHHHHHHH
Confidence            344568999999999998853

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=88.65  E-value=0.078  Score=48.25  Aligned_cols=43  Identities=9%  Similarity=-0.096  Sum_probs=27.0

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|.+++|..|.-.+...-..        +...-++||.|+||| ||++|++.
T Consensus       216 ~G~e~vK~aLll~L~GG~~k--------~rgdihVLL~G~PGt-KS~Lar~i  258 (506)
T 3f8t_A          216 PGAEEVGKMLALQLFSCVGK--------NSERLHVLLAGYPVV-CSEILHHV  258 (506)
T ss_dssp             TTCHHHHHHHHHHHTTCCSS--------GGGCCCEEEESCHHH-HHHHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCccc--------cCCceeEEEECCCCh-HHHHHHHH
Confidence            35666665555544441111        111226999999999 99999866

>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=88.60  E-value=0.087  Score=43.03  Aligned_cols=27  Identities=30%  Similarity=0.342  Sum_probs=21.7

Q ss_pred             CCceeEEEcCCCCCCCcccccccCCce
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ....|+|.|+||+|||++..+..+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~~   47 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQA   47 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCC
Confidence            345789999999999999987666553

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=88.59  E-value=0.02  Score=44.73  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=17.9

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      +-+.+.||+|+||||+++.+++
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3577899999999999975544

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=88.58  E-value=0.075  Score=49.16  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=20.3

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +..-+.+.||+|+||||+++..+|.
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3445679999999999999977773

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=88.51  E-value=0.15  Score=47.86  Aligned_cols=29  Identities=34%  Similarity=0.319  Sum_probs=22.0

Q ss_pred             CceeEEEcCCCCCCCcccccc---c---CCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA---L---GYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~---~---~~~~~~~   60 (225)
                      +.-|+|.|+||+||||+|+..   .   |.+++.+
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~l   86 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   86 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            445889999999999999732   2   6677654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=88.50  E-value=0.091  Score=48.32  Aligned_cols=26  Identities=35%  Similarity=0.383  Sum_probs=21.1

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+.|.||.|+|||||++.++|.
T Consensus        45 ~~Ge~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           45 KEGMVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34455779999999999999977774

>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=88.50  E-value=0.062  Score=41.43  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -.|++.|++|+|||+|+.+..+..+
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~~   43 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDAF   43 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999976655443

>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=88.42  E-value=0.052  Score=42.60  Aligned_cols=25  Identities=20%  Similarity=0.216  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..|++.|++|+|||+|+.+..+..+
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~~   50 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDEF   50 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSC
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCCC
Confidence            4789999999999999976655443

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=88.41  E-value=0.081  Score=43.45  Aligned_cols=18  Identities=28%  Similarity=0.497  Sum_probs=15.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=|.|.||+|+||||+++
T Consensus        28 ~~i~~eG~~GsGKsT~~~   45 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQ   45 (236)
T ss_dssp             CEEEEEESTTSCHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            456789999999999886

>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=88.37  E-value=0.053  Score=42.48  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=19.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCC
Confidence            468999999999999997655433

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=88.35  E-value=0.057  Score=48.38  Aligned_cols=20  Identities=40%  Similarity=0.692  Sum_probs=17.5

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      +++-|++.|++|+||||++.
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~  118 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVG  118 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            46788899999999999885

>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=88.32  E-value=0.18  Score=44.85  Aligned_cols=53  Identities=25%  Similarity=0.308  Sum_probs=30.9

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccCCc
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      |++++.+.|.+.+...-...+  ........--+.|.|+||+|||+|..+.+|..
T Consensus       152 gv~~L~~~i~~~l~~~~~~~~--~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          152 NLDTMLETIIKKLEEKGLDLE--SKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             SHHHHHHHHHHHHHHTTCCSS--SCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CHHHHHHHHHHhcccccccch--hccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            667777777665532000000  00001123467899999999999998766644

>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=88.29  E-value=0.091  Score=44.45  Aligned_cols=24  Identities=25%  Similarity=0.419  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+.+.|+||+|||+|..+..|..+
T Consensus        10 ~VaIvG~~nvGKSTLln~L~g~~~   33 (301)
T 1ega_A           10 FIAIVGRPNVGKSTLLNKLLGQKI   33 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTCSE
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCc
Confidence            467999999999999987776554

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=88.28  E-value=0.032  Score=51.61  Aligned_cols=24  Identities=21%  Similarity=0.194  Sum_probs=19.4

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      ...-+.|.||+||||||+++.+++
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHH
Confidence            344578999999999999986655

>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=88.16  E-value=0.17  Score=42.42  Aligned_cols=54  Identities=15%  Similarity=0.182  Sum_probs=31.9

Q ss_pred             ChHHHHHHHHHHHHcccCChHHHHHcCC-CCCceeEEEcCCCCCCCcccccccCCcee
Q psy7782           2 SLDVQIQEIKESVELPLTHPEYYEEMGI-KPPKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus         2 Gl~~~k~~l~~~v~~~l~~~~~~~~~g~-~~~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      |++++.+.+.+.+...   .+.....|. ..+--+.+.|.||+|||++..+..|....
T Consensus        92 gi~~L~~~i~~~l~~~---~~~~~~~~~~~~~~~v~~vG~~nvGKSsliN~l~~~~~~  146 (282)
T 1puj_A           92 GLNQIVPASKEILQEK---FDRMRAKGVKPRAIRALIIGIPNVGKSTLINRLAKKNIA  146 (282)
T ss_dssp             TGGGHHHHHHHHHHHH---HHHHHHTTCCCCCEEEEEEESTTSSHHHHHHHHHTSCCC
T ss_pred             cHHHHHHHHHHHHHHH---HHHHHhcCCCCCCceEEEEecCCCchHHHHHHHhcCcee
Confidence            4555555555554321   111122232 23346889999999999999877775543

>3i4o_A Translation initiation factor IF-1; cytoplasm, protein biosynthesis; 1.47A {Mycobacterium tuberculosis} SCOP: b.40.4.5

Probab=88.15  E-value=0.69  Score=31.38  Aligned_cols=48  Identities=13%  Similarity=0.095  Sum_probs=40.6

Q ss_pred             eeeEEEEEecCCeEEEEccCCCeEEEeecCCCC--cCCCCCCCeEEecCC
Q psy7782         161 SVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVD--KDQLEPGCSVLLNHK  208 (225)
Q Consensus       161 ~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd--~~~L~pG~~V~ln~~  208 (225)
                      ..|+|++.+..+.+-|...+|..+.+.++..+-  ...+.|||+|.+.-.
T Consensus        16 ~~G~Vik~l~n~~f~V~l~nG~~~~c~i~GK~Rk~~I~Il~GD~V~ve~~   65 (79)
T 3i4o_A           16 VEGRVVEPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELS   65 (79)
T ss_dssp             EEEEEEEEETTTEEEEEETTSCEEEEEECHHHHHTTCCCCTTCEEEEEEE
T ss_pred             EEEEEEEEcCCCEEEEEeCCCCEEEEEeCcceecCCccCCCCCEEEEEEC
Confidence            459999999999999998899999999998764  456889999987543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=88.14  E-value=0.061  Score=42.78  Aligned_cols=24  Identities=25%  Similarity=0.301  Sum_probs=19.4

Q ss_pred             ceeEEEcCCCCCCCcccccccCCc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~   56 (225)
                      --|++.|++|+|||+|+.+..+..
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            478999999999999997555433

>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=88.08  E-value=0.094  Score=40.41  Aligned_cols=22  Identities=18%  Similarity=0.157  Sum_probs=18.5

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      --|++.|++|+|||+|+.+..+
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~   45 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYAD   45 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhc
Confidence            4689999999999999975544

>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=88.07  E-value=0.058  Score=45.72  Aligned_cols=22  Identities=18%  Similarity=0.308  Sum_probs=18.3

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+.|.||+|+|||+|.+.++|.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5688999999999999876664

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=87.96  E-value=0.084  Score=42.94  Aligned_cols=27  Identities=22%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      .-|.+.|++|||||++++   ...|.+|++
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            357799999999999997   335777764

>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=87.92  E-value=0.057  Score=42.15  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      ..|++.|++|+|||+|+.+..+..+
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~~   50 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKDQF   50 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcC
Confidence            4689999999999999976655444

>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=87.84  E-value=0.076  Score=42.10  Aligned_cols=26  Identities=23%  Similarity=0.193  Sum_probs=20.4

Q ss_pred             CceeEEEcCCCCCCCcccccccCCce
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .--|++.|++|+|||+|+.+..+-.|
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~~   52 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDCY   52 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCCC
Confidence            35789999999999999975554433

>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=87.80  E-value=0.07  Score=48.52  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=19.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+ .-+.|.||+|||||||.+.++|
T Consensus        27 i~~-e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           27 FDE-LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             CCS-SEEEEECCTTSSHHHHHHHHHH
T ss_pred             Ecc-ceEEEECCCCCcHHHHHHHHhc
Confidence            445 5667999999999999864444

>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=87.79  E-value=0.068  Score=41.96  Aligned_cols=22  Identities=18%  Similarity=0.173  Sum_probs=18.2

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      .-.|++.|++|+|||+|+.+..
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~   51 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYT   51 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHH
Confidence            4578999999999999995444

>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.74  E-value=2.2  Score=30.78  Aligned_cols=51  Identities=18%  Similarity=0.135  Sum_probs=42.9

Q ss_pred             CCCceeeEEEEEecCCeEEEEccCCCeEEEeecCCCCc-CCCCCCCeEEecC
Q psy7782         157 GTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDK-DQLEPGCSVLLNH  207 (225)
Q Consensus       157 ~~p~~vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd~-~~L~pG~~V~ln~  207 (225)
                      .....+|+|++.+..+.+-|...+|.+.++.++..+-+ --+++|+.|.+..
T Consensus        13 ~ege~~g~V~~~lgn~~f~V~l~nG~~~la~i~GK~Rk~IwI~~GD~VlVe~   64 (111)
T 2dgy_A           13 SNQQQIVRVLRTPGNNLHEVETAQGQRFLVSMPSKYRKNIWIKRGDFLIVDP   64 (111)
T ss_dssp             CSSCEEEEEEECCSSSEEEEECTTSCEEEEECCTTCCSCCCCCSSCEEEEEE
T ss_pred             CCCeEEEEEEEeCCCCEEEEEeCCCCEEEEEechhhcccEEEcCCCEEEEEe
Confidence            34678999999999999999999999999999987654 3367888888854

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=87.66  E-value=0.095  Score=43.46  Aligned_cols=26  Identities=19%  Similarity=0.367  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~~   59 (225)
                      .|++.|+||+|||+|..+..+...+.
T Consensus        10 ~I~vvG~~g~GKSTLin~L~~~~~~~   35 (274)
T 3t5d_A           10 TLMVVGESGLGKSTLINSLFLTDLYS   35 (274)
T ss_dssp             EEEEEECTTSSHHHHHHHHSSSCC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCccc
Confidence            58999999999999997666654443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=87.62  E-value=0.11  Score=41.05  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=17.1

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      ..-+++.|+||+|||+++.+
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~   49 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIER   49 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHH
Confidence            45788999999999999863

---

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	225
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	3e-17
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	1e-13
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	2e-12
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	1e-11
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	2e-06
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	1e-05
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	3e-04
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	4e-04
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	0.001
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	0.001
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	0.002
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	0.003
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	0.003
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	0.004

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 76.2 bits (186), Expect = 3e-17
 Identities = 27/46 (58%), Positives = 36/46 (78%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLP 48
             Q+ +IKE VELPL HP  ++ +G+KPP+G++LYGPPGTGKTL 
Sbjct: 9  CRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLI 54

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 65.6 bits (159), Expect = 1e-13
 Identities = 21/47 (44%), Positives = 32/47 (68%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPF 49
          L+   +E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTL  
Sbjct: 12 LEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLA 58

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score = 62.5 bits (152), Expect = 2e-12
 Identities = 22/45 (48%), Positives = 30/45 (66%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           D   +E+ E VE  L  P  ++++G K PKGV++ GPPGTGKTL
Sbjct: 17 CDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score = 60.2 bits (146), Expect = 1e-11
 Identities = 22/45 (48%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 3  LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           +   +E+KE VE  L +P  + EMG + PKGV+L GPPG GKT 
Sbjct: 14 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 57

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 44.9 bits (105), Expect = 2e-06
 Identities = 9/42 (21%), Positives = 16/42 (38%)

Query: 6  QIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
              +   ++      +  +     P   V+L GPP +GKT 
Sbjct: 14 WGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTA 55

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 1/39 (2%)

Query: 10  IKESVELPLTHPEYYEEMGIKPPKGVIL-YGPPGTGKTL 47
           +  + EL    P   E  G +   G+++  G   +GKT 
Sbjct: 100 VDLTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTP 138

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score = 38.4 bits (88), Expect = 3e-04
 Identities = 14/100 (14%), Positives = 32/100 (32%), Gaps = 7/100 (7%)

Query: 4   DVQIQE-IKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGA 62
           D Q +  + +++E  +   +      ++ P   +L G PG+GKT     A+         
Sbjct: 8   DKQFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTS-LRSAIFEETQGNVI 61

Query: 63  GSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKL 102
             ++D    +         +  +   K            +
Sbjct: 62  VIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAI 101

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 38.2 bits (87), Expect = 4e-04
 Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 7/44 (15%)

Query: 4  DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
          + Q+Q++   +   L +P               L G PGTGKT+
Sbjct: 22 EQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTV 58

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

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: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 37.0 bits (85), Expect = 0.001
 Identities = 9/45 (20%), Positives = 15/45 (33%), Gaps = 4/45 (8%)

Query: 3   LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
           L   + ++   V   L          I   +  +  GP  +GKT 
Sbjct: 129 LHCLLPKMDSVVYDFLKC----MVYNIPKKRYWLFKGPIDSGKTT 169

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]} Length = 305

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

 Score = 36.4 bits (83), Expect = 0.001
 Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 25 EEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRG 61
          +++  +  +  I+   PG GKT  + PA+      RG
Sbjct: 3  DDI-FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRG 38

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 36.4 bits (83), Expect = 0.002
 Identities = 8/18 (44%), Positives = 11/18 (61%)

Query: 30 KPPKGVILYGPPGTGKTL 47
            PK +++ GP G GKT 
Sbjct: 47 VTPKNILMIGPTGVGKTE 64

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 35.7 bits (81), Expect = 0.003
 Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 8/40 (20%)

Query: 7  IQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKT 46
           Q+++  +E              +P + ++L+GPPG GKT
Sbjct: 18 KQKLRVYLEAAKARK--------EPLEHLLLFGPPGLGKT 49

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.5 bits (80), Expect = 0.003
 Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 4  DVQIQEIKESVELPLTHPEY----YEEMGIKPPKGVILYGPPGTGKT 46
             + ++K  +       +       + G    +  +LYGPPG GKT
Sbjct: 20 KGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKT 66

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 35.1 bits (79), Expect = 0.004
 Identities = 22/213 (10%), Positives = 45/213 (21%), Gaps = 7/213 (3%)

Query: 4   DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLP---FSPALGYHYYCR 60
             + + +       L       ++ +         G  G GKT         +       
Sbjct: 22  RGEAEALARIYLNRLLSGAGLSDVNM----IYGSIGRVGIGKTTLAKFTVKRVSEAAAKE 77

Query: 61  GAGSNSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLER 120
           G        +  +    Y                    A+ + +             L  
Sbjct: 78  GLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVI 137

Query: 121 IKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSV 180
           + ++  M        E L      +EE  SR    R   + V +    +      +    
Sbjct: 138 LDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVE 197

Query: 181 GSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVV 213
               +   L      +L           +   V
Sbjct: 198 SQIGFKLHLPAYKSRELYTILEQRAELGLRDTV 230

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	225
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.76
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.75
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.73
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.66
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.3
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.28
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.16
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.01
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.89
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.71
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	98.65
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.61
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.44
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.26
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.19
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.09
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.04
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.95
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.86
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.84
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.84
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.73
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.64
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.64
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.59
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.57
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.54
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.43
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.4
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.37
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.34
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.3
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.27
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.25
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.23
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.21
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.21
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.1
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.06
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.06
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.02
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.02
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.96
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.96
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.95
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.86
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.83
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.82
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.79
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.77
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.75
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.74
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.69
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.68
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.68
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.65
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.54
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.51
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.5
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.5
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.48
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.46
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.43
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.37
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.27
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.18
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.18
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.15
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.12
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.96
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.95
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.66
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.52
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.5
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.49
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.47
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.27
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.26
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.06
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.94
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.89
d1okkd2	207	GTPase domain of the signal recognition particle r	94.81
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	94.8
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.8
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.77
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.71
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.67
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.62
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.55
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.54
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.51
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.47
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.43
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.36
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.36
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.2
d1ls1a2	207	GTPase domain of the signal sequence recognition p	94.18
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.15
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.04
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.02
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.96
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.93
d2qy9a2	211	GTPase domain of the signal recognition particle r	93.9
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.8
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.56
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.56
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.52
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.48
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.45
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.43
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.43
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.43
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.22
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.21
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.2
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.17
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.1
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.01
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.91
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.79
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.74
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.73
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.72
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.68
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.61
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.59
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.58
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.5
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.38
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.33
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.32
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.32
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	92.31
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.27
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.22
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.18
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.12
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.07
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	92.05
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.05
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	92.04
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.98
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	91.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	91.88
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.88
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.87
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.86
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	91.81
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	91.79
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.77
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	91.76
d1ah9a_	71	Translational initiation factor 1, IF1 {Escherichi	91.74
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	91.72
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	91.56
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.49
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.38
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.28
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.2
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	91.2
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.12
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	91.1
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.08
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.07
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	91.01
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	91.01
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.84
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.82
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	90.68
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.62
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	90.59
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.54
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	90.53
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	90.48
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	90.42
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	90.23
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.2
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	90.15
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	90.05
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.02
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	90.01
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.89
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	89.82
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	89.77
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	89.76
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	89.61
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.43
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	89.36
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	89.34
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.19
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	89.01
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	88.91
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	88.78
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	88.38
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.15
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	88.12
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	88.12
d1u0la1	66	Probable GTPase EngC (YjeQ), N-terminal domain {Th	87.69
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	87.49
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.46
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	87.28
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	87.06
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	87.05
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	86.63
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	86.6
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.25
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.25
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.8
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	85.71
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	85.64
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	85.34
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	85.28
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	85.22
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	85.12
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.05
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	84.82
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	84.06
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	83.65
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	83.48
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	83.41
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	83.01
d1xpua3	289	Transcription termination factor Rho, ATPase domai	82.53
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.33
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	82.19
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	81.87
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	81.84
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	81.29
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	80.49
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	80.18

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=99.76  E-value=1.5e-19  Score=151.12  Aligned_cols=90  Identities=33%  Similarity=0.522  Sum_probs=72.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|+++++++|.+.+.+ +.+++.|+++|..+++|+|||||||||||++|+   .+++.+++.++.++        + ..+
T Consensus        15 ~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~~~~~l   93 (256)
T d1lv7a_          15 AGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRV   93 (256)
T ss_dssp             CSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHHHH
T ss_pred             hchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhHHHHHH
Confidence            5999999999998876 899999999999999999999999999999997   55678888887665        2 335


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|+.|++++|||+     |.++..|.
T Consensus        94 ~~~f~~A~~~~P~il~iDeiD~l~~~r~  121 (256)
T d1lv7a_          94 RDMFEQAKKAAPCIIFIDEIDAVGRQRG  121 (256)
T ss_dssp             HHHHHHHHTTCSEEEEETTHHHHTCCCS
T ss_pred             HHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            799999999999997     66665553

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=99.75  E-value=1.2e-19  Score=151.02  Aligned_cols=90  Identities=32%  Similarity=0.514  Sum_probs=75.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC--------C-CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS--------N-SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~--------~-~~~   68 (225)
                      +|++++|+.|.+.+.+ +.+|+.|.++|..+++|+|||||||||||++|+   .+++.+++.++.++        + +.+
T Consensus        12 ~G~~~~k~~l~~~i~~-l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~~l   90 (247)
T d1ixza_          12 AGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARV   90 (247)
T ss_dssp             CSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHHHH
T ss_pred             ccHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccHHHHHH
Confidence            5899999999998766 999999999999999999999999999999997   56779998776544        2 446


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +++|+.|+.++||||     |.++..|.
T Consensus        91 ~~~f~~a~~~~p~Ii~iDeid~l~~~r~  118 (247)
T d1ixza_          91 RDLFETAKRHAPCIVFIDEIDAVGRKRG  118 (247)
T ss_dssp             HHHHHHHTTSSSEEEEEETHHHHHC---
T ss_pred             HHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            899999999999997     66665553

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=1.1e-19  Score=151.94  Aligned_cols=91  Identities=36%  Similarity=0.683  Sum_probs=79.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      .|++++|++|++.+.+|+.+|+.|..+|+.+++|+|||||||||||++|+   ..++.+++.++.++      |   ..+
T Consensus         7 ~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~~~~~l   86 (258)
T d1e32a2           7 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNL   86 (258)
T ss_dssp             CSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccccHHHHH
Confidence            59999999999999999999999999999999999999999999999997   56778998877554      2   445


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|..|+.++|||+     |.+..+|.
T Consensus        87 ~~~f~~A~~~~p~il~iDeid~l~~~r~  114 (258)
T d1e32a2          87 RKAFEEAEKNAPAIIFIDELDAIAPKRE  114 (258)
T ss_dssp             HHHHHHHHHTCSEEEEESSGGGTCCHHH
T ss_pred             HHHHHHHHhcCCeEEEehhhhhhccCCC
Confidence            799999999999997     66665554

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=1.1e-18  Score=146.39  Aligned_cols=91  Identities=27%  Similarity=0.525  Sum_probs=79.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC------C---CCc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS------N---SDK   68 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~------~---~~~   68 (225)
                      .|+++++++|.+.+.+|+.+|+.|..+|+.+++|+|||||||||||++|+   ..+|.+|+.++.++      |   ..+
T Consensus        10 ~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~~~~l   89 (265)
T d1r7ra3          10 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANV   89 (265)
T ss_dssp             SSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccchHHHH
Confidence            48999999999999999999999999999999999999999999999997   56779999887544      2   445


Q ss_pred             cchhhhhhcCCCCCC-----cccccccc
Q psy7782          69 KDDKDKKKKYEPPIP-----TRVGKKKR   91 (225)
Q Consensus        69 ~~~f~~a~~~~p~ii-----d~igk~r~   91 (225)
                      +.+|..|+.++|||+     |.++..+.
T Consensus        90 ~~~f~~A~~~~p~il~ideid~l~~~~~  117 (265)
T d1r7ra3          90 REIFDKARQAAPCVLFFDELDSIAKARG  117 (265)
T ss_dssp             HHHHHHHHHTCSEEEEESSGGGTCCHHH
T ss_pred             HHHHHHHHhcCCcceeHHhhhhccccCC
Confidence            799999999999997     66776654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.30  E-value=3.4e-14  Score=121.03  Aligned_cols=87  Identities=16%  Similarity=0.156  Sum_probs=61.3

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcC-CCCCceeEEEcCCCCCCCccccc---ccCCceeeccCCC-----------C
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGPPGTGKTLPFSP---ALGYHYYCRGAGS-----------N   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~~---~~~~~~~~~~~~~-----------~   65 (225)
                      +|++++++.|.+.+..+++......... -.+++|+|||||||||||++|++   .++.+|+.++.++           +
T Consensus        17 iGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~~   96 (309)
T d1ofha_          17 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVD   96 (309)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTT
T ss_pred             cChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeecc
Confidence            6999999999998865543332222111 13679999999999999999984   3557777666554           1


Q ss_pred             CCccchhhhhhcC-----CCCCC--cccc
Q psy7782          66 SDKKDDKDKKKKY-----EPPIP--TRVG   87 (225)
Q Consensus        66 ~~~~~~f~~a~~~-----~p~ii--d~ig   87 (225)
                      +..+.+|..|+..     +||||  |.|-
T Consensus        97 ~~~~~~f~~a~~~~~~~~~~~IIf~DEId  125 (309)
T d1ofha_          97 SIIRDLTDSAGGAIDAVEQNGIVFIDEID  125 (309)
T ss_dssp             HHHHHHHHTTTTCHHHHHHHCEEEEECGG
T ss_pred             ccccccchhhhcccccccCCceEEehhhh
Confidence            3457899998764     68997  5543

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.28  E-value=1.1e-13  Score=114.31  Aligned_cols=56  Identities=21%  Similarity=0.205  Sum_probs=46.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC---C-------CCccchhhhhhcCCCCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS---N-------SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~---~-------~~~~~~f~~a~~~~p~ii   83 (225)
                      ...+++|+|||||||||||++|+   ..++.+|+.++.++   |       ..++++|+.|++++|||+
T Consensus        36 ~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il  104 (246)
T d1d2na_          36 DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCV  104 (246)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEE
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhccccee
Confidence            34678999999999999999997   55678999887554   1       335799999999999997

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

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: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.16  E-value=2.3e-13  Score=116.29  Aligned_cols=74  Identities=18%  Similarity=0.037  Sum_probs=53.3

Q ss_pred             cccCChHHHHHcCCCCCceeEE-EcCCCCCCCcccccccC-----CceeeccCC--------CC-CCccchhhhhhcCCC
Q psy7782          16 LPLTHPEYYEEMGIKPPKGVIL-YGPPGTGKTLPFSPALG-----YHYYCRGAG--------SN-SDKKDDKDKKKKYEP   80 (225)
Q Consensus        16 ~~l~~~~~~~~~g~~~~~giLl-~GppGtGKT~la~~~~~-----~~~~~~~~~--------~~-~~~~~~f~~a~~~~p   80 (225)
                      ++...|..++.+|...++|+|| |||||||||++|++.++     .+|+++..+        ++ ++++++|+.|++  |
T Consensus       106 ~~~~~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~  183 (321)
T d1w44a_         106 LVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--H  183 (321)
T ss_dssp             CCSBCCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--C
T ss_pred             ccccchHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--c
Confidence            3446788888888888999876 89999999999973332     556655544        44 667999999986  8


Q ss_pred             CCC-----cccccccc
Q psy7782          81 PIP-----TRVGKKKR   91 (225)
Q Consensus        81 ~ii-----d~igk~r~   91 (225)
                      |||     |+++.+|.
T Consensus       184 ~ilf~DEid~~~~~r~  199 (321)
T d1w44a_         184 RVIVIDSLKNVIGAAG  199 (321)
T ss_dssp             SEEEEECCTTTC----
T ss_pred             cEEEeehhhhhccccc
Confidence            987     66766664

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.01  E-value=2.1e-11  Score=98.75  Aligned_cols=57  Identities=19%  Similarity=0.174  Sum_probs=45.5

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~   65 (225)
                      +|++++++.|..++..+.       . .-.++.++|||||||||||++|+   .+++.+++.+++.+.
T Consensus        12 vGqe~~~~~l~~~i~~~~-------~-~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~   71 (238)
T d1in4a2          12 IGQENVKKKLSLALEAAK-------M-RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVL   71 (238)
T ss_dssp             CSCHHHHHHHHHHHHHHH-------H-HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTC
T ss_pred             CChHHHHHHHHHHHHHHH-------h-cCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCccc
Confidence            699999999999987621       1 12455689999999999999997   567788888887775

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.89  E-value=2.5e-10  Score=92.37  Aligned_cols=57  Identities=23%  Similarity=0.366  Sum_probs=44.6

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~   65 (225)
                      +|.+++++.|+.++.+...        +-.++.++|||||||||||++|+   ..++.++...+.+..
T Consensus        12 vGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~   71 (239)
T d1ixsb2          12 IGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI   71 (239)
T ss_dssp             CSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTC
T ss_pred             CCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCcc
Confidence            6899999999999876221        22456899999999999999998   445688877776663

>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=98.71  E-value=1.6e-09  Score=88.21  Aligned_cols=56  Identities=21%  Similarity=0.270  Sum_probs=40.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC---------C---CCccchhhhhhcCCCCCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS---------N---SDKKDDKDKKKKYEPPIP   83 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~---------~---~~~~~~f~~a~~~~p~ii   83 (225)
                      +...|+|+|||||||||||++|+   ...+.+|+.++.++         +   ......+..++..++++.
T Consensus        28 ~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (273)
T d1gvnb_          28 AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMT   98 (273)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHTTSTTHHHHHHHHGGGCHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHHHhccCcccchhhhHHHHHHHHhhccchH
Confidence            45678999999999999999997   44568888887644         0   112456666666666654

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

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: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=98.65  E-value=3.8e-09  Score=91.22  Aligned_cols=57  Identities=16%  Similarity=0.035  Sum_probs=42.7

Q ss_pred             cCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCCC----------CCccchhhhhh------cCCCCCC
Q psy7782          27 MGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGSN----------SDKKDDKDKKK------KYEPPIP   83 (225)
Q Consensus        27 ~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~~----------~~~~~~f~~a~------~~~p~ii   83 (225)
                      .|.+..+++|||||||||||++|.   ..+|.+|+++++++.          .....+|+.|.      ...|+++
T Consensus       149 ~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~  224 (362)
T d1svma_         149 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQ  224 (362)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCS
T ss_pred             hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeE
Confidence            377888999999999999999997   567799999987761          23345566553      3457775

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.61  E-value=5e-09  Score=84.77  Aligned_cols=64  Identities=23%  Similarity=0.307  Sum_probs=44.7

Q ss_pred             CChHHHHHHHHHHHHcccC-ChH---HHHHcCCCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLT-HPE---YYEEMGIKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~-~~~---~~~~~g~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|.++.+++|++++..... .+.   .....+..+.+++|||||||||||++|+   ...+.+++.++.++
T Consensus        17 ig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~   87 (253)
T d1sxja2          17 CGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD   87 (253)
T ss_dssp             CSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhcccccc
Confidence            5788999999998865110 000   0122334566799999999999999997   45567788777766

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=98.44  E-value=5.9e-09  Score=92.31  Aligned_cols=83  Identities=12%  Similarity=0.102  Sum_probs=56.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcC-CCCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC-------CCCcc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS-------NSDKK   69 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~-------~~~~~   69 (225)
                      ||+++.|+.|--.+.-.++.-..-.... --.|++|||.||||||||++|+   ..++.||+...+..       |..+.
T Consensus        17 vGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTeaGYvG~DVe   96 (443)
T d1g41a_          17 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVD   96 (443)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCCTH
T ss_pred             cCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeecceeecchh
Confidence            6999999999888754321111000111 1247899999999999999997   56789999776555       46677


Q ss_pred             chhhhhhcCCCCCC
Q psy7782          70 DDKDKKKKYEPPIP   83 (225)
Q Consensus        70 ~~f~~a~~~~p~ii   83 (225)
                      .++....+.+++++
T Consensus        97 sii~~L~~~a~~~v  110 (443)
T d1g41a_          97 SIIRDLTDSAMKLV  110 (443)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhH
Confidence            77776666666654

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.26  E-value=7.6e-08  Score=77.46  Aligned_cols=44  Identities=30%  Similarity=0.403  Sum_probs=32.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|-++.++.|.+++...++++      + ..+.++|||||||||||++|++
T Consensus        19 ~~Re~ei~~l~~~l~~~l~~~------~-~~~~~lll~GppGtGKT~l~~~   62 (276)
T d1fnna2          19 PHREQQLQQLDILLGNWLRNP------G-HHYPRATLLGRPGTGKTVTLRK   62 (276)
T ss_dssp             TTCHHHHHHHHHHHHHHHHST------T-SSCCEEEEECCTTSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCC------C-CCCCceEEECCCCCCHHHHHHH
Confidence            355777777777776533222      2 4678999999999999999973

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.19  E-value=1.9e-07  Score=74.46  Aligned_cols=51  Identities=22%  Similarity=0.353  Sum_probs=38.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC--------CceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG--------YHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~--------~~~~~~~~~~   64 (225)
                      +|.+++++.|..++..           +  ....+|||||||||||++|++.+.        .+++.++.++
T Consensus        27 ig~~~~~~~l~~~i~~-----------~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~   85 (231)
T d1iqpa2          27 VGQEHIVKRLKHYVKT-----------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD   85 (231)
T ss_dssp             CSCHHHHHHHHHHHHH-----------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC
T ss_pred             cCcHHHHHHHHHHHHc-----------C--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCc
Confidence            5788899988888754           1  224699999999999999974443        4666777666

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.09  E-value=3.3e-07  Score=72.80  Aligned_cols=52  Identities=19%  Similarity=0.193  Sum_probs=36.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC--------CceeeccCCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG--------YHYYCRGAGSN   65 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~--------~~~~~~~~~~~   65 (225)
                      +|.+++++.|+.++..           +  ...++|||||||||||++|+..+.        ..++.++.++.
T Consensus        18 ig~~~~~~~L~~~~~~-----------~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~   77 (224)
T d1sxjb2          18 VGNKETIDRLQQIAKD-----------G--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDD   77 (224)
T ss_dssp             CSCTHHHHHHHHHHHS-----------C--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSC
T ss_pred             cCCHHHHHHHHHHHHc-----------C--CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccccc
Confidence            5778888888887754           1  123599999999999999863322        44666666663

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.08  E-value=4.4e-07  Score=71.99  Aligned_cols=40  Identities=30%  Similarity=0.534  Sum_probs=30.9

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +|.+++++.|+.++..           +  ...++|||||||||||++|+..+
T Consensus        17 vg~~~~~~~L~~~i~~-----------~--~~~~lLl~Gp~G~GKttl~~~la   56 (227)
T d1sxjc2          17 YGQNEVITTVRKFVDE-----------G--KLPHLLFYGPPGTGKTSTIVALA   56 (227)
T ss_dssp             CSCHHHHHHHHHHHHT-----------T--CCCCEEEECSSSSSHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHc-----------C--CCCeEEEECCCCCChhHHHHHHH
Confidence            5788899999888754           1  11259999999999999997443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.04  E-value=3.4e-07  Score=73.45  Aligned_cols=42  Identities=24%  Similarity=0.301  Sum_probs=29.2

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccccC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +|.+++++.|+.++..           + ..+.++|||||||||||++|++++.
T Consensus        14 ig~~~~~~~L~~~~~~-----------~-~~~~~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          14 SHNEELTNFLKSLSDQ-----------P-RDLPHLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             CSCHHHHHHHHTTTTC-----------T-TCCCCEEEECSTTSSHHHHHHTHHH
T ss_pred             cCcHHHHHHHHHHHHc-----------C-CCCCeEEEECCCCCCHHHHHHHHHH
Confidence            4667777777655433           1 1223699999999999999975543

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.95  E-value=1.2e-06  Score=70.46  Aligned_cols=39  Identities=18%  Similarity=0.308  Sum_probs=31.4

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~   51 (225)
                      +|.+++++.|+.++..           + ..+.++|||||||||||++|+.
T Consensus        15 ig~~~~~~~L~~~i~~-----------~-~~~~~~Ll~Gp~G~GKtt~a~~   53 (239)
T d1njfa_          15 VGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARL   53 (239)
T ss_dssp             CSCHHHHHHHHHHHHT-----------T-CCCSEEEEECSTTSSHHHHHHH
T ss_pred             cChHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCcHHHHHHH
Confidence            5788888888887754           1 3467899999999999999863

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.86  E-value=7.7e-07  Score=70.62  Aligned_cols=40  Identities=28%  Similarity=0.490  Sum_probs=27.7

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCccccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      +|.+++++.|+.++..             .....+|||||||||||+++++.+
T Consensus        15 ig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtl~~~i~   54 (237)
T d1sxjd2          15 TAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALT   54 (237)
T ss_dssp             CSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChHHHHHHHH
Confidence            3556667777666543             112359999999999999987443

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=97.84  E-value=2.1e-06  Score=72.21  Aligned_cols=39  Identities=23%  Similarity=0.366  Sum_probs=29.8

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCCCCCceeEEEcCCCCCCCcccccc
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +|++++|.+|.-....+          |   ..++||+||||||||++|+++
T Consensus        10 ~Gq~~~kral~laa~~~----------~---~h~vLl~G~pG~GKT~lar~~   48 (333)
T d1g8pa_          10 VGQEDMKLALLLTAVDP----------G---IGGVLVFGDRGTGKSTAVRAL   48 (333)
T ss_dssp             CSCHHHHHHHHHHHHCG----------G---GCCEEEECCGGGCTTHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcc----------C---CCeEEEECCCCccHHHHHHHH
Confidence            68899888777655431          1   137999999999999999744

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.84  E-value=3e-06  Score=71.18  Aligned_cols=56  Identities=27%  Similarity=0.454  Sum_probs=39.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcCC----CCCceeEEEcCCCCCCCcccc---cccCCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMGI----KPPKGVILYGPPGTGKTLPFS---PALGYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g~----~~~~giLl~GppGtGKT~la~---~~~~~~~~~~~~~~   64 (225)
                      +|++++++.|.+.+...        ..|+    .|...+||.||||||||.+|+   ...+.+|+.++.++
T Consensus        25 iGQ~~a~~~v~~~v~~~--------~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~   87 (315)
T d1r6bx3          25 FGQDKAIEALTEAIKMA--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSE   87 (315)
T ss_dssp             CSCHHHHHHHHHHHHHH--------HTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGG
T ss_pred             cChHHHHHHHHHHHHHH--------HccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEecccc
Confidence            68999999999887541        2222    233357899999999999997   33556777555443

>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=97.73  E-value=1.6e-06  Score=69.83  Aligned_cols=42  Identities=17%  Similarity=-0.036  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHcccCChHHHHHcCCCC---CceeEEEcCCCCCCCcccccc
Q psy7782           4 DVQIQEIKESVELPLTHPEYYEEMGIKP---PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus         4 ~~~k~~l~~~v~~~l~~~~~~~~~g~~~---~~giLl~GppGtGKT~la~~~   52 (225)
                      ++.++.|.+++..++.+       |..+   ...++||||||||||+++++.
T Consensus        22 e~e~~~l~~~l~~~~~~-------~~~~~~~~~~l~l~GppGtGKT~l~~~l   66 (287)
T d1w5sa2          22 RGEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFT   66 (287)
T ss_dssp             CHHHHHHHHHHHHHHHT-------SSCBCCEEEEEECTTCCSSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHc-------CCCCCCcceEEEeECCCCCCHHHHHHHH
Confidence            45566666665443311       2222   224678999999999999743

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.64  E-value=9.4e-06  Score=68.11  Aligned_cols=58  Identities=16%  Similarity=0.207  Sum_probs=37.1

Q ss_pred             CChHHHHHHHHHHHHcccCChHHHHHcC-CCCCc-eeEEEcCCCCCCCccccccc------CCceeeccCCC
Q psy7782           1 MSLDVQIQEIKESVELPLTHPEYYEEMG-IKPPK-GVILYGPPGTGKTLPFSPAL------GYHYYCRGAGS   64 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~~~~~~~~g-~~~~~-giLl~GppGtGKT~la~~~~------~~~~~~~~~~~   64 (225)
                      +|++++++.|...+....      ..+. -..|. .+||+||||||||.+|+..+      +.+++.++.++
T Consensus        26 ~GQ~~ai~~v~~~i~~~~------~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~   91 (315)
T d1qvra3          26 VGQDEAIRAVADAIRRAR------AGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTE   91 (315)
T ss_dssp             CSCHHHHHHHHHHHHHHG------GGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTT
T ss_pred             eCHHHHHHHHHHHHHHHh------cCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccc
Confidence            688999998888776521      1111 11234 56788999999999997332      35666555443

>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=97.64  E-value=4.1e-06  Score=61.53  Aligned_cols=29  Identities=28%  Similarity=0.509  Sum_probs=23.5

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      .+.|+|.|||||||||+|+   ...|.+|++.
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L~~~~id~   33 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   33 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            3679999999999999997   3467887743

>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=97.59  E-value=4.3e-06  Score=62.77  Aligned_cols=30  Identities=17%  Similarity=0.178  Sum_probs=23.9

Q ss_pred             CCceeEEEcCCCCCCCcccccc---cCCceeec
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA---LGYHYYCR   60 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~---~~~~~~~~   60 (225)
                      ..+-|++.|||||||||+|++.   .|.+++..
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~   38 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAVFNTTSAWE   38 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHHTTCEEECC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            4688999999999999999743   56666643

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=97.57  E-value=9.1e-06  Score=69.59  Aligned_cols=60  Identities=22%  Similarity=0.241  Sum_probs=39.8

Q ss_pred             CChHHHHHHHHHHHHcccCC---hH---------------HHHHcCCCCCceeEEEcCCCCCCCcccccc---cCCceee
Q psy7782           1 MSLDVQIQEIKESVELPLTH---PE---------------YYEEMGIKPPKGVILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus         1 iGl~~~k~~l~~~v~~~l~~---~~---------------~~~~~g~~~~~giLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      ||++++++++...+...++.   +.               ...+. -.++..+||.||+|||||-+|++.   ++.+|+-
T Consensus        20 iGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~-~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~ir   98 (364)
T d1um8a_          20 IGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEV-ELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAI   98 (364)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHT-TCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             cChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccc-cCCCcceeeeCCCCccHHHHHHHHHhhcccceee
Confidence            69999999988776321111   01               11111 247889999999999999999743   4566664


Q ss_pred             cc
Q psy7782          60 RG   61 (225)
Q Consensus        60 ~~   61 (225)
                      +.
T Consensus        99 ~D  100 (364)
T d1um8a_          99 SD  100 (364)
T ss_dssp             EE
T ss_pred             hh
Confidence            43

>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=97.54  E-value=4.5e-06  Score=62.61  Aligned_cols=18  Identities=50%  Similarity=0.846  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      |.|+|+||||||||++++
T Consensus         2 k~v~ItG~~GtGKTtl~~   19 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIH   19 (189)
T ss_dssp             CCEEEESCCSSCHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHH
Confidence            689999999999999986

>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=97.43  E-value=1.4e-05  Score=59.70  Aligned_cols=30  Identities=23%  Similarity=0.241  Sum_probs=23.9

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeeccC
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCRGA   62 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~~~   62 (225)
                      +=|+|.|||||||||+|+   ...|.+++++..
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~   37 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHS   37 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCEEEecH
Confidence            457899999999999997   445778877654

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.40  E-value=2.9e-05  Score=63.64  Aligned_cols=54  Identities=20%  Similarity=0.195  Sum_probs=37.0

Q ss_pred             CCCceeEEEcCCCCCCCcccc-------------cccCCceeeccCCC---CCC--------ccchhhhhhcCCCCCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS-------------PALGYHYYCRGAGS---NSD--------KKDDKDKKKKYEPPIP   83 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~-------------~~~~~~~~~~~~~~---~~~--------~~~~f~~a~~~~p~ii   83 (225)
                      ....++||.||||+|||.++.             ...+..+++++.+.   |.+        ++.+++.+.+...+|+
T Consensus        37 ~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~~~~~~iIl  114 (268)
T d1r6bx2          37 RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSIL  114 (268)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEE
T ss_pred             CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHHHHHHHhhccCCceE
Confidence            345699999999999999874             34457788777666   222        2466777776666664

>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=97.37  E-value=1.1e-05  Score=59.99  Aligned_cols=27  Identities=33%  Similarity=0.528  Sum_probs=21.5

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      .-|+|.|||||||||+|+   ...|.++++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~   34 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYIN   34 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            358899999999999997   335677764

>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=97.34  E-value=1.1e-05  Score=60.36  Aligned_cols=20  Identities=35%  Similarity=0.504  Sum_probs=17.1

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      +..|+|.||||+||||+|+.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~   24 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEM   24 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHH
Confidence            34499999999999999973

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.30  E-value=3.9e-05  Score=60.16  Aligned_cols=23  Identities=13%  Similarity=0.297  Sum_probs=19.6

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+.++|||||||+|||++|+..
T Consensus        22 ~l~h~lLl~Gp~G~GKtt~a~~~   44 (207)
T d1a5ta2          22 RGHHALLIQALPGMGDDALIYAL   44 (207)
T ss_dssp             CCCSEEEEECCTTSCHHHHHHHH
T ss_pred             CcCeEEEEECCCCCcHHHHHHHH
Confidence            45678999999999999999733

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.27  E-value=2.6e-05  Score=61.03  Aligned_cols=53  Identities=23%  Similarity=0.258  Sum_probs=37.4

Q ss_pred             CCceeEEEcCCCCCCCcccc-------------cccCCceeeccCCC---CCC--------ccchhhhhhcCCCCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS-------------PALGYHYYCRGAGS---NSD--------KKDDKDKKKKYEPPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~-------------~~~~~~~~~~~~~~---~~~--------~~~~f~~a~~~~p~ii   83 (225)
                      ...+++|.||||+|||.++.             ...+..+++++.+.   |.+        ++.+++.+.+..+-+|
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~rl~~il~e~~~~~~~iI  118 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVI  118 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEE
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHHHHHHHHHHHhcCCCcEE
Confidence            45689999999999999873             34567888887666   322        3467777766665443

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.25  E-value=2e-05  Score=59.16  Aligned_cols=28  Identities=21%  Similarity=0.331  Sum_probs=23.6

Q ss_pred             ceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      +.|+|.||||+||||+++   ...|.+|++.
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            468999999999999987   4568999875

>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=97.23  E-value=1.6e-05  Score=58.94  Aligned_cols=20  Identities=35%  Similarity=0.517  Sum_probs=17.1

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      +-|+|.|||||||||+|+..
T Consensus         3 klI~i~G~~GsGKTTva~~L   22 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRL   22 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            45899999999999999743

>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=97.21  E-value=2.1e-05  Score=58.64  Aligned_cols=19  Identities=21%  Similarity=0.181  Sum_probs=16.1

Q ss_pred             eEEEcCCCCCCCccccccc
Q psy7782          35 VILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~   53 (225)
                      |+|.|+||+||||+|+..+
T Consensus         9 I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7789999999999997443

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.21  E-value=2.6e-05  Score=58.83  Aligned_cols=29  Identities=28%  Similarity=0.434  Sum_probs=24.4

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      .+.|+|.|||||||||+|+   ...|++|++.
T Consensus         2 ~~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           2 TEPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CCCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            3678999999999999997   4578998864

>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=97.10  E-value=3.6e-05  Score=57.26  Aligned_cols=29  Identities=24%  Similarity=0.249  Sum_probs=21.3

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      ++=++|.|||||||||+|+   ...+++++..
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~   37 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   37 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeech
Confidence            4557899999999999997   3345555543

>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=97.06  E-value=5.3e-05  Score=56.25  Aligned_cols=29  Identities=21%  Similarity=0.233  Sum_probs=21.9

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      .+-|+|.||||+||||+|+   ...+.+++.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~   34 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAF   34 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEe
Confidence            4578999999999999997   3444555543

>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=97.06  E-value=4.1e-05  Score=55.99  Aligned_cols=20  Identities=30%  Similarity=0.359  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      +=|+|.||||+||||+|+..
T Consensus         3 klIii~G~pGsGKTTla~~L   22 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREF   22 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            34789999999999999743

>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=97.02  E-value=2.7e-05  Score=58.44  Aligned_cols=21  Identities=33%  Similarity=0.567  Sum_probs=18.1

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      .|++.||||||||||++.+++
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHh
Confidence            389999999999999986655

>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=97.02  E-value=3.8e-05  Score=58.79  Aligned_cols=28  Identities=21%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      |--|+|.|||||||||+|+   ...|.++++
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            4469999999999999997   334455443

>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=96.96  E-value=6.8e-05  Score=57.29  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=20.8

Q ss_pred             ceeEEEcCCCCCCCccccccc---CCceeec
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL---GYHYYCR   60 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~---~~~~~~~   60 (225)
                      .-|+|.||||+||||+|+..+   |..+++.
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            356789999999999997444   6665543

>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=96.96  E-value=0.0001  Score=56.07  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      +.|.=|+|.|+|||||||+|+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l   34 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEH   34 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHH
Confidence            45778899999999999999743

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.95  E-value=5.4e-05  Score=56.72  Aligned_cols=26  Identities=35%  Similarity=0.444  Sum_probs=21.6

Q ss_pred             eEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      |+|.|||||||||+++   ...|.+|++.
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~   32 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDT   32 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            6677999999999987   4568899865

>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=96.86  E-value=6.5e-05  Score=59.23  Aligned_cols=21  Identities=38%  Similarity=0.605  Sum_probs=17.8

Q ss_pred             CceeEEEcCCCCCCCcccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~   52 (225)
                      ...++||||||||||+|+.+.
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~   56 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAA   56 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHH
Confidence            356999999999999999643

>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=96.83  E-value=8.1e-05  Score=56.38  Aligned_cols=26  Identities=38%  Similarity=0.611  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCccccc---ccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSP---ALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~---~~~~~~~~   59 (225)
                      .|+|.||||+||||+|+.   ..|...++
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~   30 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIS   30 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            478999999999999973   34555554

>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=96.82  E-value=0.0001  Score=56.38  Aligned_cols=21  Identities=33%  Similarity=0.619  Sum_probs=18.1

Q ss_pred             CCCceeEEEcCCCCCCCcccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~   50 (225)
                      ..|.=|++.||||+||||+|+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~   24 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCA   24 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHH
Confidence            345678999999999999997

>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=96.79  E-value=8.8e-05  Score=55.87  Aligned_cols=25  Identities=28%  Similarity=0.448  Sum_probs=19.6

Q ss_pred             eEEEcCCCCCCCcccccc---cCCceee
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~~   59 (225)
                      |+|.||||+||||+|+..   .|..+++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~~~~i~   30 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYGIPHIS   30 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceec
Confidence            889999999999999733   4555554

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.77  E-value=9.1e-05  Score=57.84  Aligned_cols=23  Identities=26%  Similarity=0.314  Sum_probs=20.2

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++.+-++|+||||||||++|-
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~l   52 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCH   52 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHH
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHH
Confidence            47777889999999999999984

>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=96.75  E-value=0.00011  Score=56.31  Aligned_cols=28  Identities=18%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             CceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          32 PKGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      ..-|+|.||||+||||+|+   ...|..+++
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            3457899999999999997   334555554

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.74  E-value=0.00012  Score=56.40  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      -|+|.||||+||||+|+   ...|..+++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is   36 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLS   36 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            57889999999999997   334555543

>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=96.69  E-value=4.1e-05  Score=58.10  Aligned_cols=20  Identities=35%  Similarity=0.265  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~   52 (225)
                      .-|+|.|+||+||||+|+..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~L   39 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMAL   39 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            34568899999999999744

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.68  E-value=0.00012  Score=55.53  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceeec
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYCR   60 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~~   60 (225)
                      -|+|.||||+||||+|+   ...|...++.
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            47889999999999997   3345555543

>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=96.68  E-value=0.00014  Score=55.67  Aligned_cols=29  Identities=28%  Similarity=0.484  Sum_probs=21.3

Q ss_pred             CCceeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          31 PPKGVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      .++=|+|.||||+||||+|+   ...|.+.++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            34568899999999999997   334554443

>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=96.65  E-value=0.00013  Score=55.32  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=19.5

Q ss_pred             eEEEcCCCCCCCcccc---cccCCceee
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      |+|.||||+||||+|+   ...|..+++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            7899999999999997   334555554

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00019  Score=54.34  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..=++++||||+|||++|-
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l   41 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICH   41 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHH
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHH
Confidence            57777888999999999999984

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.51  E-value=0.0005  Score=58.91  Aligned_cols=53  Identities=23%  Similarity=0.222  Sum_probs=33.3

Q ss_pred             CCceeEEEcCCCCCCCcccc-------------cccCCceeeccCCC---CCCc--------cchhhhhhcCC-CCCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFS-------------PALGYHYYCRGAGS---NSDK--------KDDKDKKKKYE-PPIP   83 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~-------------~~~~~~~~~~~~~~---~~~~--------~~~f~~a~~~~-p~ii   83 (225)
                      ...++||.||||+|||.++.             ...+..++.+..+.   |.+.        ..+...+.... ++|+
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~il  119 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVIL  119 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHHHTTCSSEEE
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHHHHHHHHHHhccCCCceEE
Confidence            45678999999999999873             34457788888777   3222        35555666665 4543

>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=96.50  E-value=0.00019  Score=55.39  Aligned_cols=25  Identities=28%  Similarity=0.509  Sum_probs=18.3

Q ss_pred             eeEEEcCCCCCCCcccccc---cCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPA---LGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~---~~~~~~   58 (225)
                      =|.+.||||+||+|+|+..   .|.+++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i   32 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL   32 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            3567899999999999733   344444

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.50  E-value=0.00017  Score=54.43  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=19.2

Q ss_pred             eeEEEcCCCCCCCcccc---cccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      -|+|.||||+||||+|+   ...|..+++
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            37889999999999986   334555543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.48  E-value=0.00017  Score=56.68  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.0

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++.+-++++||||||||++|-
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~l   54 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAH   54 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHH
T ss_pred             CccCCEEEEEEcCCCCCHHHHHH
Confidence            47777788999999999999884

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {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: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.46  E-value=0.00028  Score=55.28  Aligned_cols=32  Identities=25%  Similarity=0.219  Sum_probs=23.9

Q ss_pred             CChHHHHHc--CCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEEM--GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~~--g~~~~~giLl~GppGtGKT~la~   50 (225)
                      .-+.+-.-+  |+++.+-++++||||||||++|.
T Consensus        22 Gi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lal   55 (258)
T d1v5wa_          22 GSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSH   55 (258)
T ss_dssp             SCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHH
T ss_pred             CCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHH
Confidence            344444433  57777788999999999999984

>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=96.43  E-value=0.00026  Score=55.95  Aligned_cols=20  Identities=20%  Similarity=0.194  Sum_probs=17.8

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      ..+.+++|||+|+|||++++
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~   47 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIK   47 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHH
T ss_pred             cCCEEEEEcCCCCcHHHHHH
Confidence            34689999999999999996

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.37  E-value=0.00024  Score=55.79  Aligned_cols=23  Identities=39%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..-++++||||||||++|.
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~   44 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVS   44 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHH
Confidence            47777888999999999999984

>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=96.27  E-value=0.00033  Score=52.07  Aligned_cols=18  Identities=39%  Similarity=0.575  Sum_probs=15.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +=|++.||||+||||+++
T Consensus         2 kiI~i~G~~GsGKsT~~~   19 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQ   19 (190)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            347899999999999986

>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=96.18  E-value=0.00029  Score=51.86  Aligned_cols=19  Identities=26%  Similarity=0.310  Sum_probs=16.1

Q ss_pred             eEEEcCCCCCCCccccccc
Q psy7782          35 VILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~   53 (225)
                      +.+.|+||+|||||+.+++
T Consensus         5 i~itG~~GSGKTTL~~~L~   23 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLI   23 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            6799999999999997443

>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=96.18  E-value=0.00031  Score=53.46  Aligned_cols=18  Identities=33%  Similarity=0.521  Sum_probs=15.9

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=|+|.||||+||||.|+
T Consensus         2 ~iI~i~GppGSGKsT~a~   19 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCA   19 (194)
T ss_dssp             EEEEEECCTTSSHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            347899999999999996

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.15  E-value=0.0003  Score=53.74  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=17.6

Q ss_pred             CceeEEEcCCCCCCCccccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~   53 (225)
                      |.=|+|.|+||+||||+|++.+
T Consensus         2 p~li~l~GlpgsGKSTla~~L~   23 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLT   23 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3447899999999999997433

>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=96.12  E-value=0.00041  Score=53.72  Aligned_cols=25  Identities=24%  Similarity=0.558  Sum_probs=18.4

Q ss_pred             eEEEcCCCCCCCcccc---cccCCceee
Q psy7782          35 VILYGPPGTGKTLPFS---PALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~---~~~~~~~~~   59 (225)
                      |.+.||||+||||+|+   ...|.++++
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4467999999999997   444555554

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.96  E-value=0.00052  Score=52.95  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+++..-++++||||+|||++|.
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~   44 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSI   44 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHH
Confidence            57788888999999999999984

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.95  E-value=0.00064  Score=53.05  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=21.9

Q ss_pred             CCCCCceeEEEcCCCCCCCccccccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~   53 (225)
                      |.+..+.++|||||+||||++|.+.+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHH
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHH
Confidence            56777889999999999999996443

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {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: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.66  E-value=0.0015  Score=52.33  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=18.6

Q ss_pred             CCceeEEEcCCCCCCCcccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~   52 (225)
                      ....+|++||||||||++|+++
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~i   43 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLI   43 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHH
T ss_pred             CCCCEEEECCCCcCHHHHHHHH
Confidence            3467999999999999999743

>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=95.52  E-value=0.0011  Score=50.62  Aligned_cols=18  Identities=39%  Similarity=0.765  Sum_probs=16.1

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      |.|.|.||+|+|||++++
T Consensus         1 rpIvl~GPsGsGK~tl~~   18 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLK   18 (190)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            458999999999999986

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.50  E-value=0.0016  Score=50.39  Aligned_cols=46  Identities=9%  Similarity=-0.099  Sum_probs=30.5

Q ss_pred             CCceeEEEcCCCCCCCccccccc---------CCceeeccCCC---C-CCccchhhhhh
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPAL---------GYHYYCRGAGS---N-SDKKDDKDKKK   76 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~---------~~~~~~~~~~~---~-~~~~~~f~~a~   76 (225)
                      .+..+|||||||||||++|...+         ..+++.+....   | ..+|++.+.+.
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~   72 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLN   72 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHh
Confidence            45699999999999999985222         24577766432   2 33466665554

>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=95.49  E-value=0.0012  Score=50.11  Aligned_cols=18  Identities=33%  Similarity=0.772  Sum_probs=16.4

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      |.|+|.||+|+|||++++
T Consensus         2 rpIvl~GpsG~GK~tl~~   19 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLK   19 (186)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            569999999999999886

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.47  E-value=0.0011  Score=51.16  Aligned_cols=35  Identities=23%  Similarity=0.287  Sum_probs=25.1

Q ss_pred             cccCChHHHHHcC--CCCCceeEEEcCCCCCCCcccc
Q psy7782          16 LPLTHPEYYEEMG--IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        16 ~~l~~~~~~~~~g--~~~~~giLl~GppGtGKT~la~   50 (225)
                      .+...+++-.-++  +++..=++|+||||+|||++|-
T Consensus        16 i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l   52 (258)
T d2i1qa2          16 LSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMH   52 (258)
T ss_dssp             ECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHH
T ss_pred             ecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHH
Confidence            3444555554443  6666778999999999999984

>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=95.27  E-value=0.0014  Score=48.75  Aligned_cols=16  Identities=38%  Similarity=0.628  Sum_probs=14.6

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |++.|+||+||||+++
T Consensus         4 ivi~G~~GsGKTT~~~   19 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLA   19 (194)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            6789999999999996

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=95.26  E-value=0.0017  Score=52.22  Aligned_cols=18  Identities=22%  Similarity=0.346  Sum_probs=15.2

Q ss_pred             CceeEEEcCCCCCCCccc
Q psy7782          32 PKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la   49 (225)
                      ...+|+.||||||||+.+
T Consensus        14 ~~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SSEEEECCCTTSCHHHHH
T ss_pred             CCCEEEEeeCCccHHHHH
Confidence            356899999999999865

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

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: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.06  E-value=0.0044  Score=50.04  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=16.8

Q ss_pred             CceeEEEcCCCCCCCccccc
Q psy7782          32 PKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~   51 (225)
                      .+-+.+||++|.|||+||+.
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~   63 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQ   63 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHH
Confidence            34567999999999999963

>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=94.94  E-value=0.0025  Score=49.85  Aligned_cols=20  Identities=35%  Similarity=0.486  Sum_probs=12.4

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.=++|.||+|+||||.+.
T Consensus        11 ~p~vi~lvGptGvGKTTTiA   30 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAG   30 (211)
T ss_dssp             SSEEEEEECSCCC----HHH
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            45568899999999999753

>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=94.89  E-value=0.006  Score=45.39  Aligned_cols=16  Identities=25%  Similarity=0.206  Sum_probs=14.3

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |-+.||+|+||||+|+
T Consensus        25 IgI~G~~GSGKSTla~   40 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLAN   40 (198)
T ss_dssp             EEEEECTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            4489999999999996

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=94.81  E-value=0.0021  Score=50.17  Aligned_cols=19  Identities=32%  Similarity=0.499  Sum_probs=16.0

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ++-++|.||+|+||||.+.
T Consensus         6 ~~vi~lvGptGvGKTTTia   24 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIA   24 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHH
Confidence            4667899999999999753

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=94.80  E-value=0.0056  Score=42.85  Aligned_cols=20  Identities=40%  Similarity=0.459  Sum_probs=16.8

Q ss_pred             CCCceeEEEcCCCCCCCccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la   49 (225)
                      ...+..+|++|||+|||..+
T Consensus         5 ~~~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTH
T ss_pred             HcCCcEEEEcCCCCChhHHH
Confidence            34578899999999999876

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.80  E-value=0.0027  Score=48.27  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=17.3

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||||.|||++|.
T Consensus        14 g~gvl~~G~sG~GKStlal   32 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETAL   32 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHH
Confidence            5799999999999999884

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.77  E-value=0.003  Score=51.28  Aligned_cols=19  Identities=21%  Similarity=0.382  Sum_probs=16.1

Q ss_pred             CCceeEEEcCCCCCCCccc
Q psy7782          31 PPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la   49 (225)
                      +...+|+.||||||||+.+
T Consensus        23 ~~g~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          23 TEGPLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CSSCEEEEECTTSCHHHHH
T ss_pred             CCCCEEEEecCCccHHHHH
Confidence            4457999999999999865

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.71  E-value=0.0028  Score=53.45  Aligned_cols=17  Identities=41%  Similarity=0.669  Sum_probs=14.5

Q ss_pred             ceeEEEcCCCCCCCccc
Q psy7782          33 KGVILYGPPGTGKTLPF   49 (225)
Q Consensus        33 ~giLl~GppGtGKT~la   49 (225)
                      +=.++.||||||||+++
T Consensus       164 ~~~vI~G~pGTGKTt~i  180 (359)
T d1w36d1         164 RISVISGGPGTGKTTTV  180 (359)
T ss_dssp             SEEEEECCTTSTHHHHH
T ss_pred             CeEEEEcCCCCCceehH
Confidence            45689999999999875

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=94.67  E-value=0.0026  Score=49.43  Aligned_cols=23  Identities=17%  Similarity=0.127  Sum_probs=18.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~   52 (225)
                      ..+.-|+|.|.||+|||++|+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L   44 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVEL   44 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHH
Confidence            34455889999999999999743

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.62  E-value=0.0031  Score=48.02  Aligned_cols=19  Identities=37%  Similarity=0.434  Sum_probs=17.3

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||+|.|||++|.
T Consensus        15 g~gvli~G~sG~GKS~lal   33 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECAL   33 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            5799999999999999884

>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=94.55  E-value=0.0027  Score=48.50  Aligned_cols=25  Identities=36%  Similarity=0.519  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      |.|+|.|+||+|||+|..+..+..+
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~   25 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQY   25 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCC
Confidence            5799999999999999875554333

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.54  E-value=0.0024  Score=45.89  Aligned_cols=25  Identities=16%  Similarity=0.147  Sum_probs=20.2

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -|+|.|+||+|||+|..+..+-.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~   26 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4789999999999999866665543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=94.51  E-value=0.0031  Score=50.96  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=17.2

Q ss_pred             CCCCceeEEEcCCCCCCCccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la   49 (225)
                      ++..+=..||||||||||++|
T Consensus        51 i~~g~itei~G~~gsGKTtl~   71 (263)
T d1u94a1          51 LPMGRIVEIYGPESSGKTTLT   71 (263)
T ss_dssp             EETTSEEEEECSTTSSHHHHH
T ss_pred             ccCceEEEEecCCCcHHHHHH
Confidence            444555689999999999988

>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=94.47  E-value=0.0031  Score=47.36  Aligned_cols=18  Identities=33%  Similarity=0.578  Sum_probs=15.7

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      +=|+|.||||+|||++++
T Consensus         3 ~iivl~GpsG~GK~tl~~   20 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVR   20 (182)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            447899999999999986

>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=94.43  E-value=0.0027  Score=46.03  Aligned_cols=26  Identities=19%  Similarity=0.178  Sum_probs=21.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCceee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYYC   59 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~~   59 (225)
                      -|+|.|+||||||+|..+..+-.|..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~~~~   32 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGEVVT   32 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcc
Confidence            48999999999999998766655543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=94.36  E-value=0.003  Score=49.51  Aligned_cols=20  Identities=40%  Similarity=0.649  Sum_probs=16.6

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.-++|.||+|+||||.++
T Consensus        10 ~p~vi~lvGptGvGKTTTiA   29 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCG   29 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            45668899999999999653

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.36  E-value=0.0032  Score=46.31  Aligned_cols=29  Identities=14%  Similarity=0.075  Sum_probs=20.7

Q ss_pred             CceeEEEcCCCCCCCcccccccCCceeec
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYYCR   60 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~~~   60 (225)
                      ..-|+|.|+||+|||+|..+..+-.+...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~~~~~~   41 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDDRLGQH   41 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC-----
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcce
Confidence            34689999999999999987777655433

>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=94.20  E-value=0.0047  Score=45.18  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|+||+|||+|..+..+-.+
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~~   27 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGEDV   27 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCC
Confidence            489999999999999987666444

>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=94.18  E-value=0.003  Score=49.22  Aligned_cols=17  Identities=35%  Similarity=0.374  Sum_probs=14.1

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =++|.||+|+||||.+.
T Consensus        12 vi~lvGp~GvGKTTTia   28 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAA   28 (207)
T ss_dssp             EEEEECCTTTTHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            35789999999999763

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.15  E-value=0.0043  Score=44.54  Aligned_cols=20  Identities=20%  Similarity=0.210  Sum_probs=17.2

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |+|.|+||+|||+|+.+.++
T Consensus         3 ivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999975544

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.04  E-value=0.0045  Score=46.72  Aligned_cols=19  Identities=32%  Similarity=0.473  Sum_probs=17.2

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+|+||.||||.|||++|.
T Consensus        15 g~gvli~G~sg~GKS~la~   33 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETAL   33 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHH
Confidence            5799999999999999884

>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=94.02  E-value=0.0031  Score=48.80  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=19.9

Q ss_pred             CCceeEEEcCCCCCCCcccccccC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +..=+-|.||.|||||||.+.++|
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            344566999999999999998877

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=93.96  E-value=0.0044  Score=49.20  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=17.8

Q ss_pred             CCCCCceeEEEcCCCCCCCcccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~   50 (225)
                      |+.+..=.+|+||||+|||+++.
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l   47 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLAL   47 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHH
Confidence            34445556899999999999874

>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=93.93  E-value=0.0048  Score=45.40  Aligned_cols=31  Identities=19%  Similarity=0.094  Sum_probs=23.8

Q ss_pred             ceeEEEcCCCCCCCcccccccCCceeeccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYYCRGAG   63 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~~~~~~   63 (225)
                      --|++.|.||+|||+|+.+..+-.+......
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~~   46 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMNEVVHTSPT   46 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSCEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccccc
Confidence            4699999999999999987777555544333

>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=93.90  E-value=0.0044  Score=48.45  Aligned_cols=20  Identities=30%  Similarity=0.532  Sum_probs=16.4

Q ss_pred             CCceeEEEcCCCCCCCcccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~   50 (225)
                      .|.=++|.||+|+||||.+.
T Consensus         8 ~p~vi~lvGptGvGKTTTiA   27 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIG   27 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            35568899999999999664

>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=93.80  E-value=0.0044  Score=49.04  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=21.4

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +....-+-|.||+|||||||.+.++|.
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          28 IKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCcchhhHhccCC
Confidence            344455678999999999999988774

>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=93.56  E-value=0.011  Score=43.56  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=8.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -|++.|.||||||+|+.+.++-.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEEECCCCC-------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999998666533

>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=93.56  E-value=0.0055  Score=45.20  Aligned_cols=29  Identities=17%  Similarity=0.125  Sum_probs=22.6

Q ss_pred             ceeEEEcCCCCCCCcccccccCCceeecc
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHYYCRG   61 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~~~~~   61 (225)
                      --|++.|+||+|||+|+.+..+-.|-..+
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~~~~~~~   45 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASEDISHIT   45 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSCCEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCcce
Confidence            35899999999999999877665554333

>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=93.52  E-value=0.0052  Score=49.26  Aligned_cols=26  Identities=35%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+-+.||+|||||||++.++|
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhc
Confidence            44556678999999999999997777

>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=93.48  E-value=0.0074  Score=50.01  Aligned_cols=21  Identities=38%  Similarity=0.488  Sum_probs=17.9

Q ss_pred             CCceeEEEcCCCCCCCccccc
Q psy7782          31 PPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~   51 (225)
                      ..+++|+.||+|+|||++.++
T Consensus       165 ~~~nili~G~tgSGKTT~l~a  185 (323)
T d1g6oa_         165 IGKNVIVCGGTGSGKTTYIKS  185 (323)
T ss_dssp             HTCCEEEEESTTSSHHHHHHH
T ss_pred             hCCCEEEEeeccccchHHHHH
Confidence            346899999999999998753

>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=93.45  E-value=0.0084  Score=45.14  Aligned_cols=19  Identities=26%  Similarity=0.434  Sum_probs=17.0

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+.++|.||+|+|||++++
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~   21 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKN   21 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHH
Confidence            4679999999999999985

>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=93.43  E-value=0.0044  Score=49.15  Aligned_cols=26  Identities=27%  Similarity=0.441  Sum_probs=20.3

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..=+-|.||+|||||||.+.++|.
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcC
Confidence            33444568899999999999877773

>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=93.43  E-value=0.0041  Score=46.10  Aligned_cols=21  Identities=24%  Similarity=0.322  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+++.|+||||||+|+.+..+
T Consensus         5 KivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            378999999999999975444

>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=93.43  E-value=0.0057  Score=45.75  Aligned_cols=21  Identities=24%  Similarity=0.290  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -|++.|+||+|||+|+.+..+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            378999999999999975444

>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=93.22  E-value=0.005  Score=49.04  Aligned_cols=26  Identities=15%  Similarity=0.043  Sum_probs=20.6

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ....-+-|.||+||||||+++.++|.
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            33445568899999999999988874

>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=93.21  E-value=0.0058  Score=48.65  Aligned_cols=22  Identities=32%  Similarity=0.554  Sum_probs=18.1

Q ss_pred             eeE-EEcCCCCCCCcccccccCC
Q psy7782          34 GVI-LYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giL-l~GppGtGKT~la~~~~~~   55 (225)
                      +++ |.||.||||||+.+.++|.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            443 7899999999999977773

>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=93.20  E-value=0.0053  Score=48.87  Aligned_cols=26  Identities=35%  Similarity=0.534  Sum_probs=20.1

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .+..-+-|.||+||||||+.+.++|.
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcC
Confidence            33344568899999999999877773

>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=93.17  E-value=0.0081  Score=45.10  Aligned_cols=25  Identities=24%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             eEEEcCCCCCCCcccc--cccCCceee
Q psy7782          35 VILYGPPGTGKTLPFS--PALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~--~~~~~~~~~   59 (225)
                      |-+.|++|+|||++|.  ...|.++++
T Consensus         6 IgitG~~gSGKstva~~l~~~g~~~~~   32 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLRSWGYPVLD   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHHTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCeEEE
Confidence            3488999999999997  445666654

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.10  E-value=0.01  Score=47.95  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=18.4

Q ss_pred             CCCCCceeEEEcCCCCCCCccc
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la   49 (225)
                      |++..+=..||||||||||++|
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~   77 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVA   77 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHH
Confidence            4556666789999999999998

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.01  E-value=0.011  Score=47.42  Aligned_cols=26  Identities=23%  Similarity=0.257  Sum_probs=21.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+.+.||+|+|||||++.++|
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHh
Confidence            44556678999999999999998877

>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=92.91  E-value=0.0056  Score=46.30  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=17.7

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      .|+|.|+||+|||+|..+..+
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~   25 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTT   25 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999865443

>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=92.88  E-value=0.007  Score=44.59  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=18.7

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|.+.|+||+|||+|+.+.+|...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~   25 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKK   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            378999999999999988777543

>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=92.79  E-value=0.0064  Score=45.03  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .|+|.|+||+|||+|..+..|..+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~   25 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKV   25 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            478999999999999987776543

>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=92.74  E-value=0.0082  Score=47.72  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+-+.||+|+|||||++.++|
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHH
Confidence            44555667899999999999987766

>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=92.73  E-value=0.0087  Score=47.85  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+-+.||+|||||||++.++|
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhc
Confidence            34555677999999999999987777

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

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: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=92.72  E-value=0.014  Score=46.93  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=19.1

Q ss_pred             CCCCceeEEEcCCCCCCCccccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSP   51 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~   51 (225)
                      .+....+.|||||+||||+++.+
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~  123 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEA  123 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHH
T ss_pred             CCccEEEEEEcCCCCCHHHHHHH
Confidence            35567788999999999999963

>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=92.68  E-value=0.0076  Score=47.96  Aligned_cols=24  Identities=38%  Similarity=0.553  Sum_probs=19.5

Q ss_pred             CceeEEEcCCCCCCCcccccccCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ..-+-|.||+||||||+++.++|.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            334568899999999999987774

>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=92.64  E-value=0.0095  Score=43.73  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=18.5

Q ss_pred             eEEEcCCCCCCCcccccccCCce
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      |++.|.||+|||+|+.+..+-.|
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~f   27 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGTF   27 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCCC
Confidence            78999999999999976555443

>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=92.61  E-value=0.0064  Score=44.55  Aligned_cols=21  Identities=24%  Similarity=0.156  Sum_probs=17.1

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -|+|.|+||+|||+|..+..+
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999864433

>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=92.59  E-value=0.0071  Score=49.20  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+-+.||+|||||||++.++|
T Consensus        59 i~~Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          59 IEKGEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhC
Confidence            34455567899999999999987776

>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=92.58  E-value=0.0095  Score=47.82  Aligned_cols=26  Identities=15%  Similarity=0.174  Sum_probs=20.7

Q ss_pred             CCCceeEEEcCCCCCCCcccccccCC
Q psy7782          30 KPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ....=+-|.||+||||||+++.++|.
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            33444568899999999999988884

>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=92.50  E-value=0.013  Score=43.47  Aligned_cols=36  Identities=17%  Similarity=0.121  Sum_probs=26.4

Q ss_pred             CCCCCceeEEEcCCCCCCCcccccccCCceeeccCC
Q psy7782          28 GIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAG   63 (225)
Q Consensus        28 g~~~~~giLl~GppGtGKT~la~~~~~~~~~~~~~~   63 (225)
                      +-...--|++.|+||+|||+|..+..+-.+......
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~~t   48 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVTTKPT   48 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEECSS
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCccccc
Confidence            334456789999999999999987766555544433

>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=92.38  E-value=0.015  Score=42.68  Aligned_cols=27  Identities=15%  Similarity=0.155  Sum_probs=21.1

Q ss_pred             CceeEEEcCCCCCCCcccccccCCcee
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      ..-|.|.|+|++|||+|..+..+....
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCce
Confidence            446899999999999999988875543

>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=92.33  E-value=0.0092  Score=43.18  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             eeEEEcCCCCCCCcccccccCCcee
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      -|+|.|+||+|||+|..+.++....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~~~   27 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGREAA   27 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce
Confidence            4789999999999999888775543

>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=92.32  E-value=0.0075  Score=44.45  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=18.3

Q ss_pred             eEEEcCCCCCCCcccccccCCce
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      +++.|++|+|||+|..+..+-.|
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~f   27 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKRF   27 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCCC
Confidence            78999999999999975554333

>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=92.32  E-value=0.015  Score=44.44  Aligned_cols=24  Identities=33%  Similarity=0.265  Sum_probs=19.5

Q ss_pred             EEEcCCCCCCCcccc--cccCCceee
Q psy7782          36 ILYGPPGTGKTLPFS--PALGYHYYC   59 (225)
Q Consensus        36 Ll~GppGtGKT~la~--~~~~~~~~~   59 (225)
                      -+.|++||||||+|+  ...|.++++
T Consensus         6 gITG~igSGKStv~~~l~~~G~~vid   31 (205)
T d1jjva_           6 GLTGGIGSGKTTIANLFTDLGVPLVD   31 (205)
T ss_dssp             EEECSTTSCHHHHHHHHHTTTCCEEE
T ss_pred             EEECCCCCCHHHHHHHHHHCCCeEEE
Confidence            479999999999997  456777774

>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=92.31  E-value=0.011  Score=45.02  Aligned_cols=16  Identities=19%  Similarity=0.279  Sum_probs=14.1

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |-+.||+|+||||+|+
T Consensus         5 IgI~G~~gSGKSTla~   20 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCA   20 (213)
T ss_dssp             EEEECSTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            4588999999999996

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

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: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=92.27  E-value=0.016  Score=45.92  Aligned_cols=32  Identities=13%  Similarity=0.226  Sum_probs=23.0

Q ss_pred             CChHHHHH-cCCCCCceeEEEcCCCCCCCcccc
Q psy7782          19 THPEYYEE-MGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        19 ~~~~~~~~-~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ..|.+-.. .|+.+..=+++.|+||+|||+++.
T Consensus        21 G~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~   53 (277)
T d1cr2a_          21 GCTGINDKTLGARGGEVIMVTSGSGMGKSTFVR   53 (277)
T ss_dssp             SCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHH
T ss_pred             CchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHH
Confidence            34444433 457776678899999999999873

>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=92.22  E-value=0.0091  Score=47.47  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=21.6

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~   54 (225)
                      +.+..-+-+.||+|+|||||++.++|
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHh
Confidence            34556678999999999999997777

>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=92.18  E-value=0.0095  Score=43.63  Aligned_cols=22  Identities=23%  Similarity=0.274  Sum_probs=17.8

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      -|+|.|+||+|||+|+.+..+-
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999998755443

>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=92.12  E-value=0.0063  Score=48.09  Aligned_cols=23  Identities=35%  Similarity=0.678  Sum_probs=19.5

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .=+-|.||+||||||+.+.++|.
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            34668899999999999988884

>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=92.07  E-value=0.014  Score=42.58  Aligned_cols=20  Identities=15%  Similarity=0.207  Sum_probs=17.0

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |+|.|+||+|||+|+.+..+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999975443

>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=92.05  E-value=0.013  Score=45.09  Aligned_cols=17  Identities=29%  Similarity=0.436  Sum_probs=15.0

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      =++|.||+|+|||++.+
T Consensus         4 livi~GPSG~GK~tl~~   20 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQ   20 (205)
T ss_dssp             EEEEECCTTSCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            36799999999999985

>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=92.05  E-value=0.013  Score=43.14  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|++|+|||+|..+.++-.|
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~~f   28 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTGEF   28 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC----
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            478999999999999976665443

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

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: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=92.04  E-value=0.012  Score=47.42  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=17.1

Q ss_pred             CCCCceeEEEcCCCCCCCcccc
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~   50 (225)
                      ++..+=..+|||||||||++|-
T Consensus        54 ip~g~itei~G~~~sGKT~l~l   75 (268)
T d1xp8a1          54 IPRGRITEIYGPESGGKTTLAL   75 (268)
T ss_dssp             EETTSEEEEEESTTSSHHHHHH
T ss_pred             ccCceEEEEecCCccchHHHHH
Confidence            3444455799999999999983

>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=91.98  E-value=0.014  Score=44.82  Aligned_cols=16  Identities=38%  Similarity=0.613  Sum_probs=14.5

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      +++.||+|+|||||..
T Consensus         3 i~v~G~~GsGKTTLl~   18 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTG   18 (244)
T ss_dssp             EEEECSTTSSHHHHHH
T ss_pred             EEEEcCCCCcHHHHHH
Confidence            5789999999999985

>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=91.96  E-value=0.015  Score=42.58  Aligned_cols=16  Identities=25%  Similarity=0.204  Sum_probs=14.1

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      +-+.|+||+|||||+.
T Consensus         4 i~I~G~~gSGKTTli~   19 (165)
T d1xjca_           4 WQVVGYKHSGKTTLME   19 (165)
T ss_dssp             EEEECCTTSSHHHHHH
T ss_pred             EEEEeCCCCCHHHHHH
Confidence            4589999999999985

>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=91.88  E-value=0.0091  Score=43.97  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=17.9

Q ss_pred             eEEEcCCCCCCCcccccccCCc
Q psy7782          35 VILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~   56 (225)
                      +++.|+||+|||+|+.+..+-.
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            7899999999999997554433

>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=91.88  E-value=0.0083  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=18.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|+|.|.||||||+|..+..+-.|
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~f   30 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSYF   30 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCC
Confidence            489999999999999975544333

>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=91.87  E-value=0.0091  Score=44.51  Aligned_cols=20  Identities=35%  Similarity=0.556  Sum_probs=16.8

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |++.|.||||||+|+....+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999964443

>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=91.86  E-value=0.012  Score=43.44  Aligned_cols=25  Identities=16%  Similarity=0.089  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      --|++.|+||+|||+|..+..+-.+
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~~~   37 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLGQS   37 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3599999999999999986665333

>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=91.81  E-value=0.0094  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.234  Sum_probs=18.7

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|+|.|.||||||+|+.+..+-.|
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~f   28 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENKF   28 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            478999999999999975544333

>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=91.79  E-value=0.0084  Score=44.18  Aligned_cols=21  Identities=29%  Similarity=0.381  Sum_probs=17.5

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -++|.|+||+|||+|+.+..+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999975444

>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=91.77  E-value=0.012  Score=43.26  Aligned_cols=21  Identities=38%  Similarity=0.521  Sum_probs=17.7

Q ss_pred             eEEEcCCCCCCCcccccccCC
Q psy7782          35 VILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~   55 (225)
                      |++.|++|+|||+|+....+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999765553

>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=91.76  E-value=0.0093  Score=43.70  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=17.3

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -++|.|+||+|||+|+.+..+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999975444

>d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translational initiation factor 1, IF1
species: Escherichia coli [TaxId: 562]

Probab=91.74  E-value=0.33  Score=30.71  Aligned_cols=46  Identities=17%  Similarity=0.086  Sum_probs=40.9

Q ss_pred             eeEEEEEecCCeEEEEccCCCeEEEeecCCCC--cCCCCCCCeEEecC
Q psy7782         162 VGTLEEIIDDNHAIVSTSVGSEHYVSILSFVD--KDQLEPGCSVLLNH  207 (225)
Q Consensus       162 vg~v~e~~d~~~~iV~~~~g~~~~v~v~~~vd--~~~L~pG~~V~ln~  207 (225)
                      .|+|.+++.++.+-|...+|...+..++..+-  .-.+.|||+|.+.-
T Consensus         9 ~G~V~e~lg~~~f~V~l~ng~~~~a~i~Gkmrk~ri~i~~GD~V~Vel   56 (71)
T d1ah9a_           9 QGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVEL   56 (71)
T ss_dssp             CEEEEEECSSSEEEEEETTSCEEEEEECSSGGGTTCCCCTTCEECCEE
T ss_pred             EEEEEEEcCCCEEEEEeCCCCEEEEEccchhheeEEEecCCCEEEEEE
Confidence            39999999999999999999999999999885  46899999998744

>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=91.72  E-value=0.0095  Score=43.84  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+++.|++|+|||+|+.+..+
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            388999999999999875544

>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=91.56  E-value=0.018  Score=44.04  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=20.0

Q ss_pred             eEEEcCCCCCCCcccc--cccCCceee
Q psy7782          35 VILYGPPGTGKTLPFS--PALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~--~~~~~~~~~   59 (225)
                      |-+.|++|+|||++|+  ...|.++++
T Consensus         6 IgitG~igSGKStv~~~l~~~G~~vid   32 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFADLGINVID   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTTCEEEE
T ss_pred             EEEECCCcCCHHHHHHHHHHCCCcEEE
Confidence            3489999999999997  556777664

>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=91.55  E-value=0.0058  Score=48.70  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=21.0

Q ss_pred             CCCCceeEEEcCCCCCCCcccccccCC
Q psy7782          29 IKPPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        29 ~~~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      +....-+-|.||+||||||+.+.++|.
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            344455678999999999999877773

>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=91.49  E-value=0.0093  Score=43.68  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=18.1

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      -|++.|+||+|||+|+.+..+-
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999765543

>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=91.38  E-value=0.017  Score=45.96  Aligned_cols=34  Identities=15%  Similarity=0.247  Sum_probs=27.1

Q ss_pred             CceeEEEcCCCCCCCcccccccCCceeeccCCCC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSN   65 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~~~~~~~~~~~~   65 (225)
                      .-.|+|.|.||+|||+++.++.|...+.++...+
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~   65 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGERVVSISPFQS   65 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSC
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCCceeecCCCC
Confidence            4579999999999999999888877765554443

>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=91.28  E-value=0.011  Score=43.41  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=17.4

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -|++.|++|+|||+|+.+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999975443

>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=91.20  E-value=0.02  Score=42.25  Aligned_cols=20  Identities=35%  Similarity=0.456  Sum_probs=16.8

Q ss_pred             eeEEEcCCCCCCCccccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~   53 (225)
                      -+++.|+||+|||+|+.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~   25 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFT   25 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            38899999999999996443

>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=91.20  E-value=0.012  Score=42.88  Aligned_cols=22  Identities=23%  Similarity=0.179  Sum_probs=17.9

Q ss_pred             eEEEcCCCCCCCcccccccCCc
Q psy7782          35 VILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~   56 (225)
                      |++.|++|+|||+|+.+..+-.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999997554433

>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=91.12  E-value=0.016  Score=42.76  Aligned_cols=20  Identities=35%  Similarity=0.486  Sum_probs=17.1

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |+|.|++|+|||+|+....+
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999875544

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=91.10  E-value=0.037  Score=38.91  Aligned_cols=19  Identities=26%  Similarity=0.357  Sum_probs=16.0

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+..+|.+|.|+|||+++.
T Consensus         8 ~~~~ll~apTGsGKT~~~~   26 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVP   26 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHH
T ss_pred             CCEEEEEeCCCCCHHHHHH
Confidence            3567999999999999774

>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=91.08  E-value=0.013  Score=44.00  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|.|.|+||+|||+|..+.+|...
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g~~~   48 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLINRKN   48 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTC--
T ss_pred             EEEEECCCCCCHHHHHHHhcCCCc
Confidence            489999999999999988777543

>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=91.07  E-value=0.015  Score=42.72  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=18.7

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|+||+|||+|+.+..+-.|
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~~   31 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGAF   31 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            489999999999999875544333

>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=91.01  E-value=0.014  Score=42.72  Aligned_cols=25  Identities=12%  Similarity=0.181  Sum_probs=19.3

Q ss_pred             ceeEEEcCCCCCCCcccccccCCce
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      .-|++.|++|+|||+|..+..+-.|
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~f   29 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQF   29 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCC
Confidence            4588999999999999875544333

>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=91.01  E-value=0.012  Score=43.58  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=18.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|.+|+|||+|+....+-.|
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~f   31 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSYF   31 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            589999999999999975444333

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=90.84  E-value=0.018  Score=45.53  Aligned_cols=23  Identities=39%  Similarity=0.530  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCCCCcccccccCC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~~   55 (225)
                      .=+-|.||.|+||||+.+.++|.
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            34458899999999999988884

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.82  E-value=0.021  Score=41.83  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=21.0

Q ss_pred             eEEEcCCCCCCCcccccccCCceee
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYYC   59 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~~   59 (225)
                      |.|.|.||+|||+|..+..|..+..
T Consensus         8 I~iiG~~nvGKSSLin~L~~~~~~~   32 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQKISI   32 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTCSEEE
T ss_pred             EEEECCCCCCHHHHHHHHhCCCcee
Confidence            6799999999999998887766543

>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=90.68  E-value=0.014  Score=43.23  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=17.2

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -|++.|+||+|||+|..+..+
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999864433

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=90.62  E-value=0.023  Score=46.84  Aligned_cols=18  Identities=33%  Similarity=0.532  Sum_probs=15.6

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-.||||.+|||||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            346999999999999984

>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=90.59  E-value=0.013  Score=43.14  Aligned_cols=20  Identities=25%  Similarity=0.466  Sum_probs=17.0

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |+|.|.||+|||+|+.+..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999875443

>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=90.54  E-value=0.016  Score=42.19  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=18.5

Q ss_pred             eEEEcCCCCCCCcccccccCCce
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      |++.|.+|+|||+|+.+..+-.|
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~~   25 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDSF   25 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            78899999999999976554443

>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=90.53  E-value=0.02  Score=42.28  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|.|.|.||+|||+|+.+.+|...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~   30 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKV   30 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            478999999999999987766543

>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=90.48  E-value=0.015  Score=42.65  Aligned_cols=24  Identities=17%  Similarity=0.313  Sum_probs=18.6

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|++|+|||+|+.+..+-.|
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~f   28 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSNDF   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            378899999999999975544433

>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=90.42  E-value=0.016  Score=42.76  Aligned_cols=22  Identities=23%  Similarity=0.250  Sum_probs=17.7

Q ss_pred             ceeEEEcCCCCCCCcccccccC
Q psy7782          33 KGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~~   54 (225)
                      +-|++.|++|+|||+|+.+..+
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~   24 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSK   24 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3578999999999999865444

>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=90.23  E-value=0.014  Score=42.54  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=16.6

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      +++.|+||+|||+|+.+.++
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999874433

>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=90.20  E-value=0.028  Score=41.26  Aligned_cols=19  Identities=37%  Similarity=0.483  Sum_probs=16.4

Q ss_pred             eeEEEcCCCCCCCcccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~   52 (225)
                      -|++.|+||+|||+|+...
T Consensus         8 KI~vvG~~~vGKSSli~~~   26 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRY   26 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4899999999999998643

>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=90.15  E-value=0.017  Score=42.28  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=18.6

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|+|.|.+|+|||+|..+..+-.|
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~f   29 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDSF   29 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            378999999999999975544333

>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=90.05  E-value=0.02  Score=42.02  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|++|+|||+|+.+..+-.|
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~f   29 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDEF   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCC
Confidence            589999999999999976544343

>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=90.02  E-value=0.024  Score=44.83  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=18.8

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      =+-|.||.|+|||||.+.++|.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3448899999999999988885

>d1nn5a_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.01  E-value=0.024  Score=43.55  Aligned_cols=18  Identities=28%  Similarity=0.446  Sum_probs=14.3

Q ss_pred             ceeE--EEcCCCCCCCcccc
Q psy7782          33 KGVI--LYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giL--l~GppGtGKT~la~   50 (225)
                      ||.|  |-||.|+||||+++
T Consensus         2 rG~lI~ieG~dGsGKsT~~~   21 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSR   21 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHH
Confidence            4555  44999999999885

>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=89.89  E-value=0.021  Score=42.32  Aligned_cols=23  Identities=30%  Similarity=0.239  Sum_probs=18.9

Q ss_pred             eEEEcCCCCCCCcccccccCCce
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~   57 (225)
                      |-|.|+|++|||+|..+.+|...
T Consensus         4 VaiiG~~nvGKSSLin~L~~~~~   26 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSSAKP   26 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEEECC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            67889999999999987766443

>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=89.82  E-value=0.022  Score=41.63  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=18.9

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -|++.|.+|+|||+|+.+..+-.|
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~f   28 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGIF   28 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            388999999999999975544443

>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=89.77  E-value=0.026  Score=44.99  Aligned_cols=22  Identities=27%  Similarity=0.613  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCCCCcccccccCC
Q psy7782          34 GVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~   55 (225)
                      =+-|.||.|+|||||++.++|.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHCC
Confidence            3568899999999999988884

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=89.76  E-value=0.083  Score=41.43  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=20.5

Q ss_pred             HHHcCCCCCceeEEEcCCCCCCCccc
Q psy7782          24 YEEMGIKPPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        24 ~~~~g~~~~~giLl~GppGtGKT~la   49 (225)
                      ...+....+...||+|..|+|||.++
T Consensus        68 ~~~~~~~~~~~~LL~GdvGsGKT~V~   93 (233)
T d2eyqa3          68 LSDMCQPLAMDRLVCGDVGFGKTEVA   93 (233)
T ss_dssp             HHHHHSSSCCEEEEECCCCTTTHHHH
T ss_pred             HHHHhccCccCeEEEcCCCCCcHHHH
Confidence            34444456678899999999999977

>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=89.61  E-value=0.019  Score=42.13  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=18.2

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -++|.|++|||||+|+....+-.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999997554433

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=89.43  E-value=0.033  Score=45.76  Aligned_cols=17  Identities=35%  Similarity=0.554  Sum_probs=15.1

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -.||+|.+|||||||..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          16 VAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEEECSTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            46899999999999985

>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=89.36  E-value=0.023  Score=42.15  Aligned_cols=21  Identities=19%  Similarity=0.192  Sum_probs=17.5

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -+++.|.+|+|||+|..+..+
T Consensus         7 KivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            579999999999999965444

>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=89.34  E-value=0.11  Score=42.04  Aligned_cols=15  Identities=33%  Similarity=0.711  Sum_probs=13.2

Q ss_pred             EEEcCCCCCCCcccc
Q psy7782          36 ILYGPPGTGKTLPFS   50 (225)
Q Consensus        36 Ll~GppGtGKT~la~   50 (225)
                      -+.||+|+||||+|.
T Consensus        31 Gi~G~qGSGKSTl~~   45 (286)
T d1odfa_          31 FFSGPQGSGKSFTSI   45 (286)
T ss_dssp             EEECCTTSSHHHHHH
T ss_pred             EeECCCCCCHHHHHH
Confidence            378999999999885

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.19  E-value=0.028  Score=41.42  Aligned_cols=24  Identities=29%  Similarity=0.276  Sum_probs=20.2

Q ss_pred             eEEEcCCCCCCCcccccccCCcee
Q psy7782          35 VILYGPPGTGKTLPFSPALGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~~~   58 (225)
                      |.|.|.|++|||+|+.+.+|....
T Consensus         4 VaivG~~nvGKSTLin~L~~~~~~   27 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRAHPK   27 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSSCCE
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCc
Confidence            778999999999999888775543

>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=89.01  E-value=0.035  Score=41.63  Aligned_cols=19  Identities=26%  Similarity=0.417  Sum_probs=16.0

Q ss_pred             eeEEEcCCCCCCCcccccc
Q psy7782          34 GVILYGPPGTGKTLPFSPA   52 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~   52 (225)
                      -+++.|+||+|||+|+...
T Consensus         8 KivvvG~~~vGKTsli~~l   26 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRF   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3789999999999998633

>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=88.91  E-value=0.011  Score=42.75  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=18.7

Q ss_pred             eEEEcCCCCCCCcccccccCCc
Q psy7782          35 VILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~~~   56 (225)
                      |.|.|.||+|||+|+.+.+|..
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999998776644

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.78  E-value=0.018  Score=43.59  Aligned_cols=19  Identities=37%  Similarity=0.454  Sum_probs=16.4

Q ss_pred             CCceeEEEcCCCCCCCccc
Q psy7782          31 PPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la   49 (225)
                      ..+.+++.+|+|+|||+.|
T Consensus        39 ~~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHH
Confidence            4578999999999999865

>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=88.38  E-value=0.045  Score=40.75  Aligned_cols=21  Identities=29%  Similarity=0.282  Sum_probs=16.9

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      .=|.+-|+.|+||||+++..+
T Consensus        10 ~~I~ieG~~GsGKTTl~~~L~   30 (197)
T d2vp4a1          10 FTVLIEGNIGSGKTTYLNHFE   30 (197)
T ss_dssp             EEEEEECSTTSCHHHHHHTTG
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            346788999999999997443

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=88.15  E-value=0.027  Score=44.20  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=20.1

Q ss_pred             CCceeEEEcCCCCCCCcccccccCC
Q psy7782          31 PPKGVILYGPPGTGKTLPFSPALGY   55 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la~~~~~~   55 (225)
                      ...=+-|.||.|+||||+.+.++|.
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3344557899999999999988884

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=88.12  E-value=0.041  Score=41.69  Aligned_cols=16  Identities=31%  Similarity=0.549  Sum_probs=14.1

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |.+-|++|+||||+++
T Consensus         5 IviEG~dGsGKsT~~~   20 (210)
T d4tmka_           5 IVIEGLEGAGKTTARN   20 (210)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            5677999999999886

>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=88.12  E-value=0.041  Score=40.52  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=19.4

Q ss_pred             eeEEEcCCCCCCCcccccccCCc
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYH   56 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~   56 (225)
                      -|.+.|.||+|||+|..+++|..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            47888999999999998777644

>d1u0la1 b.40.4.5 (A:3-68) Probable GTPase EngC (YjeQ), N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Probable GTPase EngC (YjeQ), N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.69  E-value=1.7  Score=26.60  Aligned_cols=55  Identities=15%  Similarity=0.103  Sum_probs=41.9

Q ss_pred             eEEEEEecCCeEEEEc-cCCCeEEEeecCCCCc--CCCCCCCeEEec---CCcceeeeccCC
Q psy7782         163 GTLEEIIDDNHAIVST-SVGSEHYVSILSFVDK--DQLEPGCSVLLN---HKVHAVVGVLSD  218 (225)
Q Consensus       163 g~v~e~~d~~~~iV~~-~~g~~~~v~v~~~vd~--~~L~pG~~V~ln---~~~~~Iv~vLp~  218 (225)
                      |.|++... +.+.|.+ .+|..|.+.+...+..  ..+-.||+|.+.   +++..|..++|.
T Consensus         5 G~Vi~~~~-~~y~V~~~e~g~~~~c~~rG~lr~~~~~~~VGD~V~~~~~~~~~g~I~~I~pR   65 (66)
T d1u0la1           5 GIVVSFHS-NMVTVEDEETGERILCKLRGKFRLQNLKIYVGDRVEYTPDETGSGVIENVLHR   65 (66)
T ss_dssp             EEEEEEET-TEEEEEETTTCCEEEEEECGGGTTTTCCCCTTCEEEEECCCSSSEEEEEECCC
T ss_pred             EEEEEEEC-CEEEEEECCCCcEEEEEeeccccccCCccccCCEEEEEECCCCeEEEEEEcCC
Confidence            67777765 4788876 4688898999887644  457889999994   456789999885

>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=87.49  E-value=0.03  Score=41.68  Aligned_cols=21  Identities=19%  Similarity=0.224  Sum_probs=17.2

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -|++.|.+|+|||+|..+..+
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            378999999999999975444

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=87.46  E-value=0.055  Score=44.54  Aligned_cols=17  Identities=35%  Similarity=0.544  Sum_probs=15.1

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -.||+|.+|||||||..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEEECCTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            46899999999999984

>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=87.28  E-value=0.052  Score=40.14  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=17.2

Q ss_pred             eeEEEcCCCCCCCcccccccC
Q psy7782          34 GVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~   54 (225)
                      -++|.|.+|+|||+|+.+...
T Consensus         4 KivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999864443

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.06  E-value=0.066  Score=40.86  Aligned_cols=21  Identities=19%  Similarity=0.145  Sum_probs=17.1

Q ss_pred             ceeEEEcCCCCCCCccccccc
Q psy7782          33 KGVILYGPPGTGKTLPFSPAL   53 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~~~~   53 (225)
                      +=|.+-||-|+||||+++..+
T Consensus         3 k~I~ieG~dGsGKST~~~~L~   23 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILK   23 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTG
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            447789999999999997444

>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=87.05  E-value=0.055  Score=40.31  Aligned_cols=20  Identities=20%  Similarity=0.220  Sum_probs=16.6

Q ss_pred             eEEEcCCCCCCCcccccccC
Q psy7782          35 VILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~~~   54 (225)
                      |+|.|++|+|||+|+.+..+
T Consensus         6 vvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999864444

>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=86.63  E-value=0.089  Score=42.97  Aligned_cols=19  Identities=21%  Similarity=0.286  Sum_probs=15.6

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      |-=|-+.||+|+||||+|+
T Consensus        80 P~iIGIaG~sgSGKSTla~   98 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTAR   98 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHH
T ss_pred             CEEEEEeCCCCCCCcHHHH
Confidence            3445589999999999986

>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=86.60  E-value=0.062  Score=45.41  Aligned_cols=27  Identities=22%  Similarity=0.545  Sum_probs=18.4

Q ss_pred             HHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782          24 YEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        24 ~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      +.++-..+..-+|+.||.|+||||+..
T Consensus       150 l~~l~~~~~GliLvtGpTGSGKSTTl~  176 (401)
T d1p9ra_         150 FRRLIKRPHGIILVTGPTGSGKSTTLY  176 (401)
T ss_dssp             HHHHHTSSSEEEEEECSTTSCHHHHHH
T ss_pred             HHHHHhhhhceEEEEcCCCCCccHHHH
Confidence            344322334456799999999999774

>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=85.80  E-value=0.077  Score=39.25  Aligned_cols=17  Identities=24%  Similarity=0.454  Sum_probs=15.3

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -|+|-|.+|+|||+|..
T Consensus         4 KivllG~~~vGKTsll~   20 (200)
T d1zcba2           4 KILLLGAGESGKSTFLK   20 (200)
T ss_dssp             EEEEECSTTSSHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47899999999999985

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.71  E-value=0.071  Score=39.89  Aligned_cols=16  Identities=25%  Similarity=0.418  Sum_probs=14.1

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |.+-|+.|+||||+++
T Consensus         3 I~ieG~dGsGKST~~~   18 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVE   18 (208)
T ss_dssp             EEEECSTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            5678999999999886

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.64  E-value=0.14  Score=40.92  Aligned_cols=27  Identities=30%  Similarity=0.402  Sum_probs=20.5

Q ss_pred             HHHcCCCCCceeEEEcCCCCCCCcccc
Q psy7782          24 YEEMGIKPPKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        24 ~~~~g~~~~~giLl~GppGtGKT~la~   50 (225)
                      ...+.-..+..-||+|..|+|||..|.
T Consensus        96 ~~d~~~~~~m~rLL~GdvGSGKT~Va~  122 (264)
T d1gm5a3          96 RNDMISEKPMNRLLQGDVGSGKTVVAQ  122 (264)
T ss_dssp             HHHHHSSSCCCCEEECCSSSSHHHHHH
T ss_pred             HHHhhccCcceeeeeccccccccHHHH
Confidence            344444556778999999999999873

>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=85.34  E-value=0.081  Score=41.31  Aligned_cols=23  Identities=22%  Similarity=0.177  Sum_probs=18.9

Q ss_pred             CceeEEEcCCCCCCCcccccccC
Q psy7782          32 PKGVILYGPPGTGKTLPFSPALG   54 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~~~~~   54 (225)
                      .+-..|.|++|+|||+|..+..+
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHST
T ss_pred             CCeEEEECCCCCCHHHHHHhhcc
Confidence            46678999999999999875544

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=85.28  E-value=0.1  Score=38.50  Aligned_cols=18  Identities=39%  Similarity=0.313  Sum_probs=15.8

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .=++|+|+=|+|||++++
T Consensus        34 ~ii~L~G~LGaGKTtfvr   51 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTR   51 (158)
T ss_dssp             EEEEEECSTTSSHHHHHH
T ss_pred             eEEEEecCCCccHHHHHH
Confidence            347899999999999997

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=85.22  E-value=0.17  Score=39.79  Aligned_cols=18  Identities=33%  Similarity=0.433  Sum_probs=15.7

Q ss_pred             CCCceeEEEcCCCCCCCc
Q psy7782          30 KPPKGVILYGPPGTGKTL   47 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~   47 (225)
                      ...+.+|+.+|+|+|||+
T Consensus         7 ~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             STTCEEEECCCTTSSTTT
T ss_pred             hcCCcEEEEECCCCCHHH
Confidence            456789999999999997

>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=85.12  E-value=0.053  Score=40.14  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCCCCcccccccCCce
Q psy7782          34 GVILYGPPGTGKTLPFSPALGYHY   57 (225)
Q Consensus        34 giLl~GppGtGKT~la~~~~~~~~   57 (225)
                      -+++.|++|+|||+|..+..+-.|
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~f   30 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGSY   30 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCC
Confidence            578999999999999975554443

>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=84.82  E-value=0.085  Score=43.33  Aligned_cols=15  Identities=40%  Similarity=0.665  Sum_probs=13.2

Q ss_pred             eEEEcCCCCCCCccc
Q psy7782          35 VILYGPPGTGKTLPF   49 (225)
Q Consensus        35 iLl~GppGtGKT~la   49 (225)
                      |=+.||||.|||+|.
T Consensus        54 igitG~pGaGKSTli   68 (323)
T d2qm8a1          54 VGITGVPGVGKSTTI   68 (323)
T ss_dssp             EEEECCTTSCHHHHH
T ss_pred             EeeeCCCCCCHHHHH
Confidence            458899999999976

>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=84.06  E-value=0.14  Score=41.38  Aligned_cols=16  Identities=19%  Similarity=0.364  Sum_probs=11.3

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      |-+.|++|+|||++++
T Consensus         7 IgIaG~SGSGKTTva~   22 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKH   22 (288)
T ss_dssp             EEEESCC---CCTHHH
T ss_pred             EEEECCCCCcHHHHHH
Confidence            5589999999999996

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=83.65  E-value=0.095  Score=41.26  Aligned_cols=32  Identities=22%  Similarity=0.206  Sum_probs=23.9

Q ss_pred             CCCceeEEEcCCCCCCCcccc------cccCCceeecc
Q psy7782          30 KPPKGVILYGPPGTGKTLPFS------PALGYHYYCRG   61 (225)
Q Consensus        30 ~~~~giLl~GppGtGKT~la~------~~~~~~~~~~~   61 (225)
                      ..|+=+++.|-.|+||||+|.      +..|..+.-+.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            468889999999999999774      44555555443

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon 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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.48  E-value=0.12  Score=39.85  Aligned_cols=19  Identities=26%  Similarity=0.218  Sum_probs=16.1

Q ss_pred             CCceeEEEcCCCCCCCccc
Q psy7782          31 PPKGVILYGPPGTGKTLPF   49 (225)
Q Consensus        31 ~~~giLl~GppGtGKT~la   49 (225)
                      ..+.+++.+|+|+|||+.+
T Consensus        57 ~g~~~~i~apTGsGKT~~~   75 (237)
T d1gkub1          57 RKESFAATAPTGVGKTSFG   75 (237)
T ss_dssp             TTCCEECCCCBTSCSHHHH
T ss_pred             CCCCEEEEecCCChHHHHH
Confidence            3578999999999999754

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=83.41  E-value=0.019  Score=42.05  Aligned_cols=16  Identities=31%  Similarity=0.534  Sum_probs=13.8

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      .+|+||.|+|||++..
T Consensus        27 tvi~G~NGsGKStil~   42 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMA   42 (222)
T ss_dssp             HHHHSCCSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            3688999999999875

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=83.01  E-value=0.13  Score=38.11  Aligned_cols=17  Identities=35%  Similarity=0.491  Sum_probs=14.4

Q ss_pred             ceeEEEcCCCCCCCccc
Q psy7782          33 KGVILYGPPGTGKTLPF   49 (225)
Q Consensus        33 ~giLl~GppGtGKT~la   49 (225)
                      +..|+.+|.|+|||+.+
T Consensus        24 ~n~lv~~pTGsGKT~i~   40 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIA   40 (200)
T ss_dssp             SCEEEECCTTSCHHHHH
T ss_pred             CCeEEEeCCCCcHHHHH
Confidence            45789999999999854

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase 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: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=82.53  E-value=0.12  Score=41.87  Aligned_cols=19  Identities=26%  Similarity=0.532  Sum_probs=16.2

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      ..-++++||+|||||+++.
T Consensus        43 GQr~~I~g~~g~GKT~l~~   61 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQ   61 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHH
Confidence            4567999999999999875

>d1e69a_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.33  E-value=0.15  Score=40.42  Aligned_cols=18  Identities=33%  Similarity=0.601  Sum_probs=14.9

Q ss_pred             cee-EEEcCCCCCCCcccc
Q psy7782          33 KGV-ILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~gi-Ll~GppGtGKT~la~   50 (225)
                      .++ +|+||.|+|||++..
T Consensus        24 ~~lnvlvG~NgsGKS~iL~   42 (308)
T d1e69a_          24 DRVTAIVGPNGSGKSNIID   42 (308)
T ss_dssp             SSEEEEECCTTTCSTHHHH
T ss_pred             CCeEEEECCCCCcHHHHHH
Confidence            444 799999999999864

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=82.19  E-value=0.13  Score=42.95  Aligned_cols=19  Identities=32%  Similarity=0.747  Sum_probs=16.6

Q ss_pred             CceeEEEcCCCCCCCcccc
Q psy7782          32 PKGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        32 ~~giLl~GppGtGKT~la~   50 (225)
                      .+++++.|++|+|||.++.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~   68 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLR   68 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHH
Confidence            3789999999999999763

>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=81.87  E-value=0.13  Score=42.16  Aligned_cols=17  Identities=29%  Similarity=0.513  Sum_probs=14.3

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      -|=+.||||.|||+|..
T Consensus        56 ~IgitG~pGaGKSTLi~   72 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLE   72 (327)
T ss_dssp             EEEEEECTTSCHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHH
Confidence            35688999999999874

>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=81.84  E-value=0.14  Score=39.12  Aligned_cols=18  Identities=22%  Similarity=0.405  Sum_probs=16.1

Q ss_pred             ceeEEEcCCCCCCCcccc
Q psy7782          33 KGVILYGPPGTGKTLPFS   50 (225)
Q Consensus        33 ~giLl~GppGtGKT~la~   50 (225)
                      .-|||-|++|+|||++..
T Consensus         7 ~KilllG~~~vGKTsll~   24 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVK   24 (221)
T ss_dssp             EEEEEECSTTSSHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            368999999999999985

>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=81.29  E-value=0.14  Score=39.23  Aligned_cols=24  Identities=21%  Similarity=0.210  Sum_probs=17.9

Q ss_pred             eEEEcCCCCCCCcccccc---cCCcee
Q psy7782          35 VILYGPPGTGKTLPFSPA---LGYHYY   58 (225)
Q Consensus        35 iLl~GppGtGKT~la~~~---~~~~~~   58 (225)
                      |-|.|+.||||||+|+..   .|+..+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            558999999999999733   354444

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.49  E-value=0.17  Score=38.27  Aligned_cols=17  Identities=29%  Similarity=0.249  Sum_probs=13.9

Q ss_pred             eeEEEcCCCCCCCcccc
Q psy7782          34 GVILYGPPGTGKTLPFS   50 (225)
Q Consensus        34 giLl~GppGtGKT~la~   50 (225)
                      ..++..|+|+|||.++.
T Consensus        87 ~~ll~~~tG~GKT~~a~  103 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAM  103 (206)
T ss_dssp             EEEEEESSSTTHHHHHH
T ss_pred             CcEEEeCCCCCceehHH
Confidence            45678899999999774

>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=80.18  E-value=0.18  Score=38.79  Aligned_cols=16  Identities=38%  Similarity=0.482  Sum_probs=14.2

Q ss_pred             eEEEcCCCCCCCcccc
Q psy7782          35 VILYGPPGTGKTLPFS   50 (225)
Q Consensus        35 iLl~GppGtGKT~la~   50 (225)
                      .++.|..|+|||||.+
T Consensus         6 ~iitGFLGaGKTTll~   21 (222)
T d1nija1           6 TLLTGFLGAGKTTLLR   21 (222)
T ss_dssp             EEEEESSSSSCHHHHH
T ss_pred             EEEeeCCCCCHHHHHH
Confidence            5899999999999875