Citrus Sinensis ID: 047336

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290
Protein Sequence
MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccEEEEEEccccccHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccEEEEEEHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHcccccccccccccccccccccccEccccccHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccccHHHcccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHcccEEEEEcccHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
MDISFRLFSERLRRVLAGeevmlsdtakqpihnlNAEVEIVTSWLREFEDDISCLLFHKIaeeeiddpdfgtimdeincftyeSGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLkhtdpkimdnfrsveaesgyfpassssknrntvglDDRMEELLDLLIEGPTQLSVVAILDsigldktaftAEAYNSSYVKHYFDylawipapyqydpdqilDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Flexible Loop (DISEMBL)
MDISFRLFSERLRRVLAGeevmlsdtakqpihnlnAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSItqqksqsrYNKDICDALQGLQSRITEIKQRvqqlkhtdpkimdNFRSVEAEsgyfpassssknrntVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Low Complexity Region (SEG)
MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNRNTVGlddrmeelldllieGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Disordered region (IsUnstruct)
*****RLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQ*****RYNKDICDALQGLQSRITEI*********************************************MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISE****
Disordered Region (DISOPRED)
MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLIN*****************ALQGLQSRITEIKQRVQQ****************************KNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTV*************************ISISFQPCILAAVLKIYWADYLIFEISEYG**
Disordered Region (DISEMBL)
MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKIMDNFRSVEAE************RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Disordered Region (DISPRO)
**ISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKI************************TVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYG**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDAxxxxxxxxxxxxxxxxxxxxxDPKIMDNFRSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWADYLIFEISEYGEI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	290	2.2.26 [Sep-21-2011]
Q9SX38	857	Putative disease resistan	yes	no	0.203	0.068	0.338	0.0002
Q9XIF0	906	Putative disease resistan	no	no	0.544	0.174	0.251	0.0002
Q9FJB5	901	Disease resistance RPP8-l	no	no	0.403	0.129	0.25	0.0002
Q6L403	1312	Putative late blight resi	N/A	no	0.479	0.105	0.266	0.0004
Q6L3Z7	1317	Putative late blight resi	N/A	no	0.479	0.105	0.266	0.0004
Q9M667	835	Disease resistance protei	no	no	0.675	0.234	0.251	0.0005
P0C8S1	906	Probable disease resistan	no	no	0.386	0.123	0.252	0.0007
Q7XBQ9	970	Disease resistance protei	N/A	no	0.596	0.178	0.191	0.0008

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score = 47.0 bits (110), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 34/59 (57%)

Query: 160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWI 218
           N VGL+  +E+L++ L+ G  +L V +I    GL KT    + ++   V+ +FD  AW+
Sbjct: 163 NLVGLEQSLEKLVNDLVSGGEKLRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAWV 221

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9XIF0|DRL13_ARATH Putative disease resistance protein At1g59780 OS=Arabidopsis thaliana GN=At1g59780 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/167 (25%), Positives = 78/167 (46%), Gaps = 9/167 (5%)

Query: 74  MDEINCFTYESGKVIDT-LINSITQQKSQSRY---NKDICDALQGLQSRITEIKQRVQQL 129
           ++EI   TY++  +I+  L+      +S + +    ++I   +  +  RI+++ Q +Q L
Sbjct: 67  LEEIKEITYDAEDIIEIFLLKGSVNMRSLACFPGGRREIALQITSISKRISKVIQVMQNL 126

Query: 130 KHTDPKIMDNFRS---VEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVA 186
                 IMD   S   +E +       SS    N VGL+  +E+L++ L+ G      V+
Sbjct: 127 G-IKSDIMDGVDSHAQLERKRELRHTFSSESESNLVGLEKNVEKLVEELV-GNDSSHGVS 184

Query: 187 ILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTV 233
           I    GL KT    + ++   VK +FD LAW+    ++    +  T+
Sbjct: 185 ITGLGGLGKTTLARQIFDHDKVKSHFDGLAWVCVSQEFTRKDVWKTI 231

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJB5|RP8L3_ARATH Disease resistance RPP8-like protein 3 OS=Arabidopsis thaliana GN=RPP8L3 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 32/128 (25%), Positives = 62/128 (48%), Gaps = 11/128 (8%)

Query: 108 ICDALQGLQSRITEIKQRVQQLKHTDPKIMDNFRSVEAE------SGYFPASSSSKNRNT 161
           +   ++G+  RI+++   +Q L     +I+D  RS+  +         FP SS S   + 
Sbjct: 108 VASDIEGITKRISKVIGEMQSLG-IQQQIIDGGRSLSLQDIQREIRQTFPNSSES---DL 163

Query: 162 VGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP 221
           VG++  +EEL+  ++E    + VV+I    G+ KT    + ++   V+ +FD  AW+   
Sbjct: 164 VGVEQSVEELVGPMVE-IDNIQVVSISGMGGIGKTTLARQIFHHDLVRRHFDGFAWVCVS 222

Query: 222 YQYDPDQI 229
            Q+    +
Sbjct: 223 QQFTQKHV 230

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6L403|R1B17_SOLDE Putative late blight resistance protein homolog R1B-17 OS=Solanum demissum GN=R1B-17 PE=3 SV=1

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 62/150 (41%), Gaps = 11/150 (7%)

Query: 81  TYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKIMDNF 140
            YE   V+D  IN +       R+  DI +        IT IK ++Q+ K+T   + D  
Sbjct: 471 AYEVEYVVDACINKVAPHWCLERWLLDIIE-------EITCIKAKIQE-KNT---VEDTM 519

Query: 141 RSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTA 200
           ++V   +    A +   N   VG  D +E L + L+ G     V++I    GL KT    
Sbjct: 520 KTVITHTSSQLARTPRMNEEIVGFKDVIENLRNRLLNGTKGQDVISIHGMPGLGKTTLAN 579

Query: 201 EAYNSSYVKHYFDYLAWIPAPYQYDPDQIL 230
             Y+   V  +FD  A       Y   ++L
Sbjct: 580 RLYSDRSVVSHFDICAQCCVSQVYSYKELL 609

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q6L3Z7|R1B14_SOLDE Putative late blight resistance protein homolog R1B-14 OS=Solanum demissum GN=R1B-14 PE=3 SV=1

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 62/150 (41%), Gaps = 11/150 (7%)

Query: 81  TYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTDPKIMDNF 140
            YE   V+D  IN +       R+  DI +        IT IK ++Q+ K+T   + D  
Sbjct: 471 AYEVEYVVDACINKVAPHWCLERWLLDIIE-------EITCIKAKIQE-KNT---VEDTM 519

Query: 141 RSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTA 200
           ++V   +    A +   N   VG  D +E L + L+ G     V++I    GL KT    
Sbjct: 520 KTVITHTSSQLARTPRMNEEIVGFKDVIENLRNRLLNGTKGQDVISIHGMPGLGKTTLAN 579

Query: 201 EAYNSSYVKHYFDYLAWIPAPYQYDPDQIL 230
             Y+   V  +FD  A       Y   ++L
Sbjct: 580 RLYSDRSVVSHFDICAQCCVSQVYSYKELL 609

Confers resistance to late blight (Phytophthora infestans) races carrying the avirulence gene Avr1. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Solanum demissum (taxid: 50514)

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score = 45.4 bits (106), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 58/231 (25%), Positives = 100/231 (43%), Gaps = 35/231 (15%)

Query: 19  EEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEIN 78
           EE  +    K+ +  L  E+  +  +L++ E         +  E+E+       ++D   
Sbjct: 19  EEASMFMAVKEDLEELKTELTCIHGYLKDVE--------AREREDEVSKEWSKLVLD--- 67

Query: 79  CFTYESGKVIDTLINSITQQKSQSR-----YNK--------DICDALQGLQSRITEIKQR 125
            F Y+   V+DT    + +++SQ R      NK         I D ++ L+ RI +I ++
Sbjct: 68  -FAYDVEDVLDTYHLKL-EERSQRRGLRRLTNKIGRKMDAYSIVDDIRILKRRILDITRK 125

Query: 126 -----VQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPT 180
                +  LK  +P+   N  S+        A S  +    VGL+D  + LL+ L++   
Sbjct: 126 RETYGIGGLK--EPQGGGNTSSLRVRQ-LRRARSVDQEEVVVGLEDDAKILLEKLLDYEE 182

Query: 181 QLS-VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQIL 230
           +   +++I    GL KTA   + YNS  VK  F+Y AW     +Y    IL
Sbjct: 183 KNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKTGDIL 233

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 56/115 (48%), Gaps = 3/115 (2%)

Query: 112 LQGLQSRITEIKQRVQQL--KHTDPKIMDNFRSVEAESGYFPASSSSKNRNTVGLDDRME 169
           ++G+  RI+E+   +Q L  +H       +    E +       S +   + VGLD  +E
Sbjct: 112 IEGITKRISEVIVGMQSLGIQHIADGGGRSLSLQERQREIRQTFSRNSESDLVGLDQSVE 171

Query: 170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQY 224
           EL+D L+E  + + VV++    G+ KT    + ++   V+ +FD  +W+    Q+
Sbjct: 172 ELVDHLVENDS-VQVVSVSGMGGIGKTTLARQVFHHDIVRRHFDGFSWVCVSQQF 225

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 34/178 (19%), Positives = 73/178 (41%), Gaps = 5/178 (2%)

Query: 62  EEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQ--QKSQSRYNKDICDALQGLQSRI 119
           E+++++      + ++N  TYE   ++D      T+  Q    RY+  +      +  R+
Sbjct: 50  EKQLNNKPLENWLQKLNAATYEVDDILDEYKTKATRFSQSEYGRYHPKVIPFRHKVGKRM 109

Query: 120 TEIKQRVQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNRNTVGLDDRMEELLDLLIEGP 179
            ++ ++++ +         + + VE ++      S        G D   +E++ +LI   
Sbjct: 110 DQVMKKLKAIAEERKNFHLHEKIVERQAVRRETGSVLTEPQVYGRDKEKDEIVKILINNV 169

Query: 180 T---QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT 234
           +    LSV+ IL   GL KT      +N   V  +F    WI     +D  +++  + 
Sbjct: 170 SDAQHLSVLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIWICVSEDFDEKRLIKAIV 227

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	290
147800242	801	hypothetical protein VITISV_002459 [Viti	0.737	0.267	0.263	6e-08
359489148	897	PREDICTED: probable disease resistance R	0.727	0.235	0.260	2e-07
297745212	706	unnamed protein product [Vitis vinifera]	0.731	0.300	0.252	2e-07
297744809	758	unnamed protein product [Vitis vinifera]	0.727	0.278	0.260	2e-07
147860533	331	hypothetical protein VITISV_034529 [Viti	0.7	0.613	0.256	9e-07
125533870	980	hypothetical protein OsI_35598 [Oryza sa	0.582	0.172	0.276	1e-06
297744817	543	unnamed protein product [Vitis vinifera]	0.710	0.379	0.264	2e-06
147839260	816	hypothetical protein VITISV_033801 [Viti	0.724	0.257	0.256	2e-06
297744815	407	unnamed protein product [Vitis vinifera]	0.658	0.469	0.268	2e-06
225454212	936	PREDICTED: putative disease resistance p	0.544	0.168	0.247	3e-06

>gi|147800242|emb|CAN77656.1| hypothetical protein VITISV_002459 [Vitis vinifera]

 Score = 64.3 bits (155), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 67/254 (26%), Positives = 115/254 (45%), Gaps = 40/254 (15%)

Query: 8   FSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDD 67
           F E+L  +L+ E  +LS   +Q +  L+ E+E    W+R F  D           +   D
Sbjct: 9   FLEKLTDLLSQEAFLLSRVEEQ-VKLLSNELE----WMRLFLKDADA--------KRRYD 55

Query: 68  PDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQRV 126
           P     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R+
Sbjct: 56  PRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVHKLESRI 109

Query: 127 QQLKHTDPKIMDNFRSVEAESGYFPASSSS--------------KNRNTVGLDDRMEELL 172
           +++     KIM N      E+   PA+SSS              +  N VG+ +  + + 
Sbjct: 110 REINIKIEKIMANKSRYGVET--LPAASSSNEVVPQKEKRVPIVEEVNVVGIREGAKSVK 167

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQIL-- 230
            +L+ G  + +VV+I+   GL KT    + YN + V+ YFD  AWI    +Y   ++L  
Sbjct: 168 QMLLNGERRRAVVSIVGMGGLGKTTLAKKVYNDNDVQQYFDCHAWIYVSQEYTIRELLLG 227

Query: 231 --DTVTWLSRRNLS 242
             D V  LS++  S
Sbjct: 228 IADYVMVLSQKQKS 241

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489148|ref|XP_003633887.1| PREDICTED: probable disease resistance RPP8-like protein 4-like [Vitis vinifera]

 Score = 62.8 bits (151), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 64/246 (26%), Positives = 109/246 (44%), Gaps = 35/246 (14%)

Query: 7   LFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEID 66
           +F E+L  +L+ E  +LS   +Q +  L++E+E    W+R F  D           +   
Sbjct: 8   VFLEKLTDLLSKEAFLLSRVEEQ-VKLLSSELE----WMRLFLKDADA--------KRRY 54

Query: 67  DPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQR 125
           DP     + +I   TY++  VID  +  +  Q+  S         LQ L+ R + +++ R
Sbjct: 55  DPRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLQFLKLRFVHKLESR 108

Query: 126 VQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNR-------------NTVGLDDRMEELL 172
           ++++     KIM N      E+   PA+SSS                N VG+ +  + + 
Sbjct: 109 IREINIKIEKIMANKSRYGVET--LPAASSSNEAVPHKEKRAPIVEVNVVGIQEDAKSVK 166

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDT 232
             L+ G  + +VV+I+   GL KT    + YN + V+  FD  AWI    +Y   ++L  
Sbjct: 167 QNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWIYVSQEYTIRELLLG 226

Query: 233 VTWLSR 238
           V    R
Sbjct: 227 VAVCVR 232

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745212|emb|CBI40292.3| unnamed protein product [Vitis vinifera]

 Score = 62.4 bits (150), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 65/257 (25%), Positives = 113/257 (43%), Gaps = 45/257 (17%)

Query: 8   FSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDD 67
           F E+L  +L+ E  +LS   +Q +  L+ E+E    W+R F  D           +   D
Sbjct: 9   FLEKLTDLLSQEAFLLSRVEEQ-VKLLSNELE----WMRLFLKDADA--------KRRYD 55

Query: 68  PDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQRV 126
           P     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R+
Sbjct: 56  PRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVHKLESRI 109

Query: 127 QQLKHTDPKIMDNFRSVEAESGYFPASSSS--------------KNRNTVGLDDRMEELL 172
           +++     KIM N      E+   PA+SSS              +  N VG+ +  + + 
Sbjct: 110 REINIKIEKIMANKSRYGVET--LPAASSSNEVVPQKEKRVPIVEEVNVVGIREGAKSVK 167

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ--------- 223
            +L+ G  + +VV+I+   GL KT    + YN + V+ YFD  AWI    +         
Sbjct: 168 QMLLNGERRRAVVSIVGMGGLGKTTLAKKVYNDNDVQQYFDCHAWIYVSQENEAWDRLSL 227

Query: 224 YDPDQILDTVTWLSRRN 240
           Y PD +  +   ++ RN
Sbjct: 228 YVPDSMNGSRVLITSRN 244

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744809|emb|CBI38077.3| unnamed protein product [Vitis vinifera]

 Score = 62.4 bits (150), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 64/246 (26%), Positives = 109/246 (44%), Gaps = 35/246 (14%)

Query: 7   LFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEID 66
           +F E+L  +L+ E  +LS   +Q +  L++E+E    W+R F  D           +   
Sbjct: 8   VFLEKLTDLLSKEAFLLSRVEEQ-VKLLSSELE----WMRLFLKDADA--------KRRY 54

Query: 67  DPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQR 125
           DP     + +I   TY++  VID  +  +  Q+  S         LQ L+ R + +++ R
Sbjct: 55  DPRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLQFLKLRFVHKLESR 108

Query: 126 VQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNR-------------NTVGLDDRMEELL 172
           ++++     KIM N      E+   PA+SSS                N VG+ +  + + 
Sbjct: 109 IREINIKIEKIMANKSRYGVET--LPAASSSNEAVPHKEKRAPIVEVNVVGIQEDAKSVK 166

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDT 232
             L+ G  + +VV+I+   GL KT    + YN + V+  FD  AWI    +Y   ++L  
Sbjct: 167 QNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWIYVSQEYTIRELLLG 226

Query: 233 VTWLSR 238
           V    R
Sbjct: 227 VAVCVR 232

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860533|emb|CAN81877.1| hypothetical protein VITISV_034529 [Vitis vinifera]

 Score = 60.5 bits (145), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 61/238 (25%), Positives = 105/238 (44%), Gaps = 35/238 (14%)

Query: 7   LFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEID 66
            F E+L  +L+ E  +LS   +Q +  L+ E+E    W+R F  D      +        
Sbjct: 8   FFLEKLTDLLSQEAFLLSRVEEQ-VKLLSNELE----WMRLFLKDADAKRRY-------- 54

Query: 67  DPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQR 125
           DP     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R
Sbjct: 55  DPRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVHKLESR 108

Query: 126 VQQLKHTDPKIMDNFRSVEAESGYFPASSSSKNR-------------NTVGLDDRMEELL 172
           ++++     KIM N      E+   PA+SSS                N VG+ +  + + 
Sbjct: 109 IREINIKIEKIMANKSRYGVET--LPAASSSNEAVPHKEKRAPIVEVNVVGIQEDAKSVK 166

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQIL 230
             L+ G  + +VV+I+   GL KT    + YN + V+  FD  AWI    +Y   ++L
Sbjct: 167 QNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWIYVSQEYTIRELL 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125533870|gb|EAY80418.1| hypothetical protein OsI_35598 [Oryza sativa Indica Group]

 Score = 59.7 bits (143), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 52/188 (27%), Positives = 91/188 (48%), Gaps = 19/188 (10%)

Query: 60  IAEEEIDDPDFGTIM----DEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGL 115
           I E+ I   + G+++    +E+     +    ID ++   T ++  SR ++ I ++++G+
Sbjct: 49  IDEQLIGKGNPGSVLFWSIEELRDLARDIEDCIDRIVYQKTWEQQASRLSRSI-NSVKGM 107

Query: 116 QSRITEIKQRVQQLKHTDPK--------IMDNFRSVEAESGYFPASSSSKNRNT----VG 163
           +S++   K+  +  K TD          ++    S    S     S +S  RN     VG
Sbjct: 108 RSKLQLAKEMQKLRKRTDEAKERRERYTVVAGHHSSPVSSDEQRCSGASDGRNLQADLVG 167

Query: 164 LDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY 222
           +D   EELL+ L E  P +L V++I+   GL KTA   E YN+S +   F   AW+ A +
Sbjct: 168 IDLPREELLEHLKEAEPKKLKVISIVGFCGLGKTALARELYNNSGLGRSFSKQAWVSAAH 227

Query: 223 QYDPDQIL 230
             DP ++L
Sbjct: 228 G-DPSKVL 234

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744817|emb|CBI38085.3| unnamed protein product [Vitis vinifera]

 Score = 59.7 bits (143), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 64/242 (26%), Positives = 108/242 (44%), Gaps = 36/242 (14%)

Query: 8   FSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDD 67
           F E+L  +L+ E  +LS   +Q +  L+ E+E    W+R F  D           +   D
Sbjct: 9   FLEKLTDLLSQEAFLLSRVEEQ-VKLLSNELE----WMRLFLKDADA--------KRRYD 55

Query: 68  PDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQRV 126
           P     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R+
Sbjct: 56  PRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVHKLESRI 109

Query: 127 QQLKHTDPKIMDNFRSVEAESGYFPASSSS------KNR--------NTVGLDDRMEELL 172
           +++     KIM N      E+   PA+SSS      K R        N VG+ +  + + 
Sbjct: 110 REINIKIEKIMANKSRYGVET--LPAASSSNEVVPHKERRAPIVEEVNVVGIQEDAKSVK 167

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDT 232
             L+ G  + +VV+I+   GL KT    + YN + V+  FD  AWI    +Y   ++L  
Sbjct: 168 QNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWIYVSQEYTIRELLLG 227

Query: 233 VT 234
           V 
Sbjct: 228 VA 229

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147839260|emb|CAN67961.1| hypothetical protein VITISV_033801 [Vitis vinifera]

 Score = 58.9 bits (141), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 63/246 (25%), Positives = 106/246 (43%), Gaps = 36/246 (14%)

Query: 8   FSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDD 67
           F E+L  +L+ E  +LS   +Q +  L+ E+E    W+R F  D           +   D
Sbjct: 9   FLEKLTDLLSQEAFLLSRVEEQ-VKLLSNELE----WMRLFLKDADA--------KRRYD 55

Query: 68  PDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQRV 126
           P     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R+
Sbjct: 56  PRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVHKLESRI 109

Query: 127 QQLKHTDPKIMDNFRSVEAESGYFPASSSSKNR--------------NTVGLDDRMEELL 172
           +++     KIM N      E+   PA+SSS                 N VG+ +  + + 
Sbjct: 110 REINXKIEKIMANKSRYGVET--LPAASSSNEXVPHKEXRAPIVXEVNVVGIQEDAKSVK 167

Query: 173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDT 232
             L+ G  + +VV+I+   GL KT    + YN + V   FD  AWI    +Y   ++L  
Sbjct: 168 QNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVXQCFDCHAWIYVSQEYTIRELLLG 227

Query: 233 VTWLSR 238
           V    R
Sbjct: 228 VAVCVR 233

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744815|emb|CBI38083.3| unnamed protein product [Vitis vinifera]

 Score = 58.9 bits (141), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 61/227 (26%), Positives = 104/227 (45%), Gaps = 36/227 (15%)

Query: 7   LFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEID 66
           +F E+L  +L+ E  +LS   +Q +  L++E+E    W+R F  D      +        
Sbjct: 8   VFLEKLTDLLSQEAFLLSRVEEQ-VKLLSSELE----WMRLFLKDADAKRRY-------- 54

Query: 67  DPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSR-ITEIKQR 125
           DP     + +I   TY++  VID  +  +  Q+  S         L+ L+ R + +++ R
Sbjct: 55  DPRIKLWVSQIRDVTYDAEDVIDRFMFEMNHQQQGS------LKCLKFLKLRFVPKLESR 108

Query: 126 VQQLKHTDPKIMDNFRSVEAESGYFPASSSS------KNR--------NTVGLDDRMEEL 171
           ++++     KIM N      E+   PA+SSS      K R        N VG+ +  + +
Sbjct: 109 IREINTKIEKIMANKSRYGVET--LPAASSSNEVVPHKERRAPIVEEVNVVGIQEDAKSV 166

Query: 172 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWI 218
              L+ G  + +VV+I+   GL KT    + YN + V+  FD  AWI
Sbjct: 167 KQNLLNGEMRRAVVSIVGMGGLGKTTLAKKVYNDNDVRQCFDCHAWI 213

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454212|ref|XP_002274233.1| PREDICTED: putative disease resistance protein At1g50180-like [Vitis vinifera]

 Score = 58.5 bits (140), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 45/182 (24%), Positives = 82/182 (45%), Gaps = 24/182 (13%)

Query: 74  MDEINCFTYESGKVIDTLINSITQQKSQSRYNK-------DICDALQGLQSRITEIKQRV 126
           +++I   T+++  VID  I  +   + Q R N          C         I E+  RV
Sbjct: 61  VEQIRNVTHDAEDVIDEFI--LDMDRRQLRLNTLKFLKCLPTCVGFADKLPFIHELDGRV 118

Query: 127 QQLKHTDPKIMDNFRSVEAESGYFPASSSSKNR---------------NTVGLDDRMEEL 171
           +++     +IM N      E+     SSS+ ++               + VG++D  E +
Sbjct: 119 KEINIRIERIMANRSKYGLEALMASNSSSTTDQVVAYKEKWAQVVEGSDVVGIEDGTEVV 178

Query: 172 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILD 231
             +L +G  + +VV+I+   GL KT    + YN S VK +FD +AW+    ++ P ++L 
Sbjct: 179 TQMLTKGEMRRAVVSIVGMGGLGKTTLAKKVYNHSGVKRHFDCIAWVCVSQEFKPRELLL 238

Query: 232 TV 233
           ++
Sbjct: 239 SI 240

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	290
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	0.001

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 19/54 (35%), Positives = 30/54 (55%)

Query: 165 DDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWI 218
           +D +E L++ L+E    L VV I+   G+ KT    + YN   V  +FD +AW+
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWV 55

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	290
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.97
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.66
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.3
cd01128	249	rho_factor Transcription termination factor rho is	98.55
PRK09376	416	rho transcription termination factor Rho; Provisio	98.51
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.48
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.33
PTZ00202	550	tuzin; Provisional	98.2
PRK08118	167	topology modulation protein; Reviewed	98.18
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.16
TIGR00767	415	rho transcription termination factor Rho. Members	98.14
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.14
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.99
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.76
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.76
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.69
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.64
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.62
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.59
PRK07261	171	topology modulation protein; Provisional	97.56
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.54
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.44
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.42
KOG2028	554	consensus ATPase related to the helicase subunit o	97.34
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.33
PRK13342	413	recombination factor protein RarA; Reviewed	97.3
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.28
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.26
PRK06696	223	uridine kinase; Validated	97.25
PRK07667	193	uridine kinase; Provisional	97.17
PTZ00301	210	uridine kinase; Provisional	97.16
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.11
PF05729	166	NACHT: NACHT domain	97.06
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.03
PRK15455	644	PrkA family serine protein kinase; Provisional	97.0
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.0
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.99
PRK05480	209	uridine/cytidine kinase; Provisional	96.94
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.9
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	96.89
PRK08233	182	hypothetical protein; Provisional	96.86
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.86
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.85
PRK04195	482	replication factor C large subunit; Provisional	96.84
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.83
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.83
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.83
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.8
PRK12402	337	replication factor C small subunit 2; Reviewed	96.78
PRK13341	725	recombination factor protein RarA/unknown domain f	96.77
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.76
PRK05541	176	adenylylsulfate kinase; Provisional	96.75
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.75
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.69
smart00382	148	AAA ATPases associated with a variety of cellular	96.67
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.67
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.63
CHL00095	821	clpC Clp protease ATP binding subunit	96.63
PRK06547	172	hypothetical protein; Provisional	96.6
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.59
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.59
PRK06762	166	hypothetical protein; Provisional	96.59
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.57
PF13173	128	AAA_14: AAA domain	96.56
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	96.54
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.54
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.53
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.49
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.48
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.48
PHA02544	316	44 clamp loader, small subunit; Provisional	96.45
PRK04841	903	transcriptional regulator MalT; Provisional	96.44
PLN03025	319	replication factor C subunit; Provisional	96.43
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.43
PF00004	132	AAA: ATPase family associated with various cellula	96.42
PRK03839	180	putative kinase; Provisional	96.41
PRK04040	188	adenylate kinase; Provisional	96.41
PRK07952	244	DNA replication protein DnaC; Validated	96.39
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.38
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.36
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.34
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.33
PRK10865	857	protein disaggregation chaperone; Provisional	96.33
PRK14738	206	gmk guanylate kinase; Provisional	96.3
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.3
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.28
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.28
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.28
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.27
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.27
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.26
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.25
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.24
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.23
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.23
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.22
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.22
PRK13975	196	thymidylate kinase; Provisional	96.21
PRK06217	183	hypothetical protein; Validated	96.21
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.19
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.19
PRK12377	248	putative replication protein; Provisional	96.19
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.18
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.18
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.16
PHA00729	226	NTP-binding motif containing protein	96.16
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.12
PRK00625	173	shikimate kinase; Provisional	96.12
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.12
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.11
CHL00181	287	cbbX CbbX; Provisional	96.11
PRK00131	175	aroK shikimate kinase; Reviewed	96.1
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.09
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.08
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.07
PRK00889	175	adenylylsulfate kinase; Provisional	96.07
PRK00300	205	gmk guanylate kinase; Provisional	96.07
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.06
PRK08116	268	hypothetical protein; Validated	96.06
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.05
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.04
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.04
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.04
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.03
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.02
PRK03846	198	adenylylsulfate kinase; Provisional	96.01
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.0
PRK06893	229	DNA replication initiation factor; Validated	95.99
PRK05439	311	pantothenate kinase; Provisional	95.98
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	95.98
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.98
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.97
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.95
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.95
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.95
PRK14530	215	adenylate kinase; Provisional	95.91
PRK13947	171	shikimate kinase; Provisional	95.9
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	95.9
PRK08084	235	DNA replication initiation factor; Provisional	95.89
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	95.88
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.88
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.87
PLN02318	656	phosphoribulokinase/uridine kinase	95.86
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.86
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.85
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.84
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.84
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	95.82
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.81
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.8
PRK13695	174	putative NTPase; Provisional	95.8
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.79
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.79
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	95.79
PRK13949	169	shikimate kinase; Provisional	95.78
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.77
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.76
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	95.75
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.74
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	95.73
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.73
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.72
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.72
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.7
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.69
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.69
PF07726	131	AAA_3: ATPase family associated with various cellu	95.69
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	95.68
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.68
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.68
COG3899	849	Predicted ATPase [General function prediction only	95.66
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.66
COG1100	219	GTPase SAR1 and related small G proteins [General	95.65
PRK00149	450	dnaA chromosomal replication initiation protein; R	95.65
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.64
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.63
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.63
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.63
PRK08727	233	hypothetical protein; Validated	95.62
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.62
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.61
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.6
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.6
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.58
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.58
PRK13765	637	ATP-dependent protease Lon; Provisional	95.57
PRK05057	172	aroK shikimate kinase I; Reviewed	95.57
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.56
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.56
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.56
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.56
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.55
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.54
PRK06761	282	hypothetical protein; Provisional	95.54
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	95.53
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.53
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.52
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.52
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.5
PRK10536	262	hypothetical protein; Provisional	95.49
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	95.49
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.49
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.49
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.49
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.46
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.46
PRK14527	191	adenylate kinase; Provisional	95.45
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	95.45
PRK12338	319	hypothetical protein; Provisional	95.44
PRK13531	498	regulatory ATPase RavA; Provisional	95.44
PRK13976	209	thymidylate kinase; Provisional	95.43
PRK12608	380	transcription termination factor Rho; Provisional	95.43
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.42
PRK04182	180	cytidylate kinase; Provisional	95.42
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.42
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.41
cd03116	159	MobB Molybdenum is an essential trace element in t	95.41
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.41
PRK06620	214	hypothetical protein; Validated	95.41
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.4
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.4
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.39
PRK08356	195	hypothetical protein; Provisional	95.38
) 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	95.37
PLN02796	347	D-glycerate 3-kinase	95.37
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.35
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.35
PRK13230	279	nitrogenase reductase-like protein; Reviewed	95.33
PLN02200	234	adenylate kinase family protein	95.32
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.32
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.32
PRK09825	176	idnK D-gluconate kinase; Provisional	95.32
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.32
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	95.31
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.31
PRK01184	184	hypothetical protein; Provisional	95.3
cd02117	212	NifH_like This family contains the NifH (iron prot	95.3
PLN02674	244	adenylate kinase	95.3
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.29
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	95.29
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.28
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.27
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.26
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.26
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.26
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.26
PRK14737	186	gmk guanylate kinase; Provisional	95.24
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.24
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.24
PRK09087	226	hypothetical protein; Validated	95.23
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.23
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.23
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.22
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.22
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.22
PLN02348	395	phosphoribulokinase	95.21
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.21
PRK00698	205	tmk thymidylate kinase; Validated	95.21
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.2
PRK13946	184	shikimate kinase; Provisional	95.2
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.19
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.19
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.18
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.17
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.17
PRK13768	253	GTPase; Provisional	95.16
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.16
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	95.15
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.14
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.13
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.13
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.12
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.12
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.12
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.1
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.1
PRK05642	234	DNA replication initiation factor; Validated	95.1
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.1
PRK10416	318	signal recognition particle-docking protein FtsY;	95.09
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.09
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.09
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.08
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.08
PRK03731	171	aroL shikimate kinase II; Reviewed	95.07
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.07
PRK13236	296	nitrogenase reductase; Reviewed	95.07
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.06
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.05
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.05
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.04
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.04
cd03114	148	ArgK-like The function of this protein family is u	95.03
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.03
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.02
TIGR00959	428	ffh signal recognition particle protein. This mode	95.02
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.02
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.02
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.01
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.01
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.01
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.0
PRK13948	182	shikimate kinase; Provisional	95.0
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.0
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	94.99
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.98
PRK12422	445	chromosomal replication initiation protein; Provis	94.98
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	94.97
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	94.97
PRK14532	188	adenylate kinase; Provisional	94.96
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.96
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.95
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	94.95
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	94.95
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	94.95
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	94.94
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.94
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	94.94
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.94
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.94
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	94.93
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	94.93
PRK13231	264	nitrogenase reductase-like protein; Reviewed	94.92
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.92
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	94.92
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	94.91
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	94.9
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	94.9
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	94.9
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	94.9
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	94.9
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.9
PRK13235	274	nifH nitrogenase reductase; Reviewed	94.9
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	94.89
PRK06067	234	flagellar accessory protein FlaH; Validated	94.89
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	94.89
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	94.88
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	94.88
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	94.87
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	94.86
PTZ00088	229	adenylate kinase 1; Provisional	94.86
PRK02496	184	adk adenylate kinase; Provisional	94.85
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	94.85
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	94.85
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	94.84
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.84
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	94.84
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	94.83
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.83
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	94.83
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.82
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	94.82
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.81
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	94.81
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	94.81
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	94.81
PRK10865	857	protein disaggregation chaperone; Provisional	94.8
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.8
PRK15453	290	phosphoribulokinase; Provisional	94.8
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.8
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	94.79
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	94.79
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	94.79
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.78
KOG3079	195	consensus Uridylate kinase/adenylate kinase [Nucle	94.78
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	94.77
PLN03046	460	D-glycerate 3-kinase; Provisional	94.77
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	94.77
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	94.77
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	94.75
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	94.75
PRK14531	183	adenylate kinase; Provisional	94.75
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	94.74
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	94.74
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	94.73
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	94.72
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	94.71
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	94.7
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	94.7
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.7
PTZ00035	337	Rad51 protein; Provisional	94.69
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.69
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	94.69
PRK09354	349	recA recombinase A; Provisional	94.68
PRK08181	269	transposase; Validated	94.68
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	94.67
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	94.67
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.66
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	94.66
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	94.66
PRK07940	394	DNA polymerase III subunit delta'; Validated	94.66
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	94.65
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.65
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	94.65
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	94.63
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.63
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	94.62
PRK07429	327	phosphoribulokinase; Provisional	94.62
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	94.62
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	94.62
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	94.61
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	94.61
TIGR00101	199	ureG urease accessory protein UreG. This model rep	94.61
PRK10908	222	cell division protein FtsE; Provisional	94.6
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	94.6
PHA02530	300	pseT polynucleotide kinase; Provisional	94.59
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	94.59
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	94.59
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	94.58
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	94.58
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	94.58
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	94.56
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	94.56
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	94.56
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	94.56
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	94.55
PLN02165	334	adenylate isopentenyltransferase	94.55
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	94.55
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.55
PRK13973	213	thymidylate kinase; Provisional	94.54
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	94.53
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	94.53
cd03246	173	ABCC_Protease_Secretion This family represents the	94.53
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	94.52
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	94.52
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	94.52
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	94.52
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	94.51
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	94.51
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	94.51
PF13245	76	AAA_19: Part of AAA domain	94.51
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	94.51
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.51
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	94.5
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.5
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	94.48
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	94.48
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	94.47
cd02032	267	Bchl_like This family of proteins contains bchL an	94.46
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	94.46
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	94.45
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	94.45
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	94.45
PLN02924	220	thymidylate kinase	94.44
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	94.43
PRK08939	306	primosomal protein DnaI; Reviewed	94.43
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.43
PRK14528	186	adenylate kinase; Provisional	94.43
smart00178	184	SAR Sar1p-like members of the Ras-family of small	94.42
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	94.42
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	94.42
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	94.42
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	94.42
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	94.42
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.42
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	94.41
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.41
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	94.41
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	94.41
PRK14088	440	dnaA chromosomal replication initiation protein; P	94.41
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	94.4
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.39
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	94.39
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	94.39
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	94.38
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	94.38
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	94.38
PRK14974	336	cell division protein FtsY; Provisional	94.37
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	94.36
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	94.35
cd03216	163	ABC_Carb_Monos_I This family represents the domain	94.35
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	94.35
PRK13234	295	nifH nitrogenase reductase; Reviewed	94.33
cd03215	182	ABC_Carb_Monos_II This family represents domain II	94.33
PRK14730	195	coaE dephospho-CoA kinase; Provisional	94.33
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.32
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	94.32
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	94.3
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	94.3
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	94.3
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	94.3
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	94.29
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	94.29
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	94.29
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	94.28
PRK00279	215	adk adenylate kinase; Reviewed	94.27
PHA02518	211	ParA-like protein; Provisional	94.27
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	94.26
KOG1969	877	consensus DNA replication checkpoint protein CHL12	94.26
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	94.26
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	94.26
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	94.25
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	94.25
PRK13974	212	thymidylate kinase; Provisional	94.24
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	94.24
PRK07933	213	thymidylate kinase; Validated	94.23
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	94.23
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	94.23
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.23

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.97  E-value=2e-29  Score=253.19  Aligned_cols=254  Identities=19%  Similarity=0.220  Sum_probs=194.9

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhcCCchHHHHHHHHHHH
Q 047336            1 MDISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCF   80 (290)
Q Consensus         1 ~~~~v~~~l~kL~~~~l~~e~~~~~~v~~~v~~L~~eL~~i~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~Wl~~lr~~   80 (290)
                      |++.+++.++|+. .++.+++..+.+.++.+..|+.+|..+++++.|++            +++.....+..|.+.++++
T Consensus         1 ~~~~~s~~~~~~~-~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~------------a~~~~~~~~~~~~e~~~~~   67 (889)
T KOG4658|consen    1 MGACVSFGVEKLD-QLLNRESECLDGKDNYILELKENLKALQSALEDLD------------AKRDDLERRVNWEEDVGDL   67 (889)
T ss_pred             CCeEEEEehhhHH-HHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHH------------hhcchHHHHHHHHHHHHHH
Confidence            7788888999999 99999999999999999999999999999999999            8888889999999999999


Q ss_pred             HHHhHhHHHHHHhhhhccc--cc-c-c--cccchh--hhhHhHHHHHHHHHHHHHHHHhhCC-----C-CCCCCCCCccC
Q 047336           81 TYESGKVIDTLINSITQQK--SQ-S-R--YNKDIC--DALQGLQSRITEIKQRVQQLKHTDP-----K-IMDNFRSVEAE  146 (290)
Q Consensus        81 a~d~eD~lD~~~~~~~~~~--g~-~-~--~~~~~~--~~~~~ia~~i~~i~~~l~~i~~~~~-----~-l~~~~~~~~~~  146 (290)
                      +|++||+++.+.......+  +. . +  ..+..+  .+.+..+..+..+.+++..+.+...     + +...+....+ 
T Consensus        68 ~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~-  146 (889)
T KOG4658|consen   68 VYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDP-  146 (889)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccc-
Confidence            9999999999988765432  22 1 1  111222  4455555555555555554444433     1 1111111111 


Q ss_pred             CCCCCCCCCCCCCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcccc-ccccCCeeEEEECCCCCC
Q 047336          147 SGYFPASSSSKNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSY-VKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       147 ~~~~~~~~~~~~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~-v~~~F~~~~wV~vs~~~~  225 (290)
                      ...+...+..++.+ ||.+..+++++++|..++.  .++||+||||+||||||+.+||+.. ++.+||.+|||+||++|+
T Consensus       147 ~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~  223 (889)
T KOG4658|consen  147 REKVETRPIQSESD-VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFT  223 (889)
T ss_pred             hhhcccCCCCcccc-ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEccccc
Confidence            22233444444455 9999999999999998774  9999999999999999999999988 999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCCCchhhHHHHhHHHHhhhccccchhhHHHHHHHHhhc--ceEE--Eeccc
Q 047336          226 PDQILDTVTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWAD--YLIF--EISEY  287 (290)
Q Consensus       226 ~~~ll~~Il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~--yLiV--~~~~~  287 (290)
                      ...++++|++.+.....   .|.++           ....  ++..|..+|+.  ||||  |||+-
T Consensus       224 ~~~iq~~Il~~l~~~~~---~~~~~-----------~~~~--~~~~i~~~L~~krfllvLDDIW~~  273 (889)
T KOG4658|consen  224 TRKIQQTILERLGLLDE---EWEDK-----------EEDE--LASKLLNLLEGKRFLLVLDDIWEE  273 (889)
T ss_pred             HHhHHHHHHHHhccCCc---ccchh-----------hHHH--HHHHHHHHhccCceEEEEeccccc
Confidence            99999999999987544   11110           1112  78889999999  9999  99975

>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=99.66  E-value=4.2e-16  Score=139.37  Aligned_cols=107  Identities=21%  Similarity=0.300  Sum_probs=87.0

Q ss_pred             cchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhhhcCCC
Q 047336          164 LDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRNLSF  243 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~~~~~~  243 (290)
                      ||.++++|.++|.....+.++|+|+||||+||||||+.+|++..++.+|+.++||.+++.++...+++.|+.++......
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            57899999999998667899999999999999999999999777899999999999999999999999999999876430


Q ss_pred             chhhHHHHhHHHHhhh-ccccchhhHHHHHHHHhhc--ceEE--Eecc
Q 047336          244 SRSWIQKENIAALWKI-SISFQPCILAAVLKIYWAD--YLIF--EISE  286 (290)
Q Consensus       244 ~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~L~~--yLiV--~~~~  286 (290)
                                     . ......+ +...|.+.|++  ||||  |+|.
T Consensus        81 ---------------~~~~~~~~~-~~~~l~~~L~~~~~LlVlDdv~~  112 (287)
T PF00931_consen   81 ---------------ISDPKDIEE-LQDQLRELLKDKRCLLVLDDVWD  112 (287)
T ss_dssp             ---------------SSCCSSHHH-HHHHHHHHHCCTSEEEEEEEE-S
T ss_pred             ---------------ccccccccc-ccccchhhhccccceeeeeeecc
Confidence                           1 1111122 77888999988  9998  6664

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.

>PLN03210 Resistant to P

Probab=99.30  E-value=2.3e-11  Score=127.82  Aligned_cols=60  Identities=22%  Similarity=0.388  Sum_probs=53.8

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      ..++||++...++|..+|..+..+.++|+||||||+||||||+.+|+  ++..+|+..+|+.
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~  242 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFID  242 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEee
Confidence            45699999999999999976667799999999999999999999999  7788999988774

syringae 6; Provisional

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.55  E-value=1.2e-07  Score=83.22  Aligned_cols=56  Identities=9%  Similarity=-0.130  Sum_probs=47.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC--CCHHHHHHHHHHHhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ--YDPDQILDTVTWLSR  238 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~--~~~~~ll~~Il~~l~  238 (290)
                      -..++|+|++|+|||||++.+|++.... +|+.++|+++++.  +++.++++.|...+-
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v   73 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVI   73 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEE
Confidence            4678999999999999999999965544 8999999998876  899999999954443

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.51  E-value=9.1e-08  Score=88.16  Aligned_cols=54  Identities=11%  Similarity=-0.101  Sum_probs=46.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCC--CHHHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQY--DPDQILDTVTWL  236 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~--~~~~ll~~Il~~  236 (290)
                      =.-..|+|++|+||||||+.||++...+ ||++++||++++.+  ++.+++++|+..
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~  224 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGE  224 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCc
Confidence            3567899999999999999999965444 89999999999998  888999998743

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.48  E-value=1.8e-06  Score=80.85  Aligned_cols=83  Identities=14%  Similarity=0.044  Sum_probs=62.2

Q ss_pred             CCCcccccchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      .++.++||+++.++|...|...  ......+-|+|++|+||||+++.++++.......-..++|......+...++..|+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            4467999999999999998542  23345567999999999999999998432222123456666666667889999999


Q ss_pred             HHhhh
Q 047336          235 WLSRR  239 (290)
Q Consensus       235 ~~l~~  239 (290)
                      +++..
T Consensus       108 ~~l~~  112 (394)
T PRK00411        108 RQLFG  112 (394)
T ss_pred             HHhcC
Confidence            99875

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.33  E-value=5.7e-06  Score=76.55  Aligned_cols=81  Identities=21%  Similarity=0.092  Sum_probs=60.8

Q ss_pred             CCcccccchhHHHHHHHHhc--CCCCcEEEEEEcCCCCChhHHHHHHhcccccc-ccC---CeeEEEECCCCCCHHHHHH
Q 047336          158 NRNTVGLDDRMEELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVK-HYF---DYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~--~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~-~~F---~~~~wV~vs~~~~~~~ll~  231 (290)
                      +..++||+.+.++|..+|..  .......+-|+|++|+||||+++.++++..-. ...   -..+||......+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            34799999999999999875  22334568899999999999999999842110 111   1356777776667788999


Q ss_pred             HHHHHhh
Q 047336          232 TVTWLSR  238 (290)
Q Consensus       232 ~Il~~l~  238 (290)
                      .|++++.
T Consensus        94 ~i~~~l~  100 (365)
T TIGR02928        94 ELANQLR  100 (365)
T ss_pred             HHHHHHh
Confidence            9999985

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.

>PTZ00202 tuzin; Provisional

Probab=98.20  E-value=1.9e-05  Score=73.77  Aligned_cols=77  Identities=13%  Similarity=0.025  Sum_probs=59.9

Q ss_pred             CCCCcccccchhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          156 SKNRNTVGLDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       156 ~~~~~~vG~e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      .+...++||+.+...|...|... ....+++.|.|++|+|||||++.+....  .    ..+++.-+.  +..++++.|+
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l--~----~~qL~vNpr--g~eElLr~LL  330 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE--G----MPAVFVDVR--GTEDTLRSVV  330 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC--C----ceEEEECCC--CHHHHHHHHH
Confidence            45567999999999999988753 2335699999999999999999999732  2    224444444  6799999999


Q ss_pred             HHhhhc
Q 047336          235 WLSRRN  240 (290)
Q Consensus       235 ~~l~~~  240 (290)
                      .+|+-.
T Consensus       331 ~ALGV~  336 (550)
T PTZ00202        331 KALGVP  336 (550)
T ss_pred             HHcCCC
Confidence            999863

>PRK08118 topology modulation protein; Reviewed

Probab=98.18  E-value=7.6e-07  Score=73.54  Aligned_cols=51  Identities=16%  Similarity=0.288  Sum_probs=36.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcccccc-ccCCeeE----EEECCCCCCHHHHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVK-HYFDYLA----WIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~-~~F~~~~----wV~vs~~~~~~~ll~~Il  234 (290)
                      +.|.|+|++|+||||||+.+++...+. -+||...    |..+++. ....++++++
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~~   57 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKE-EQITVQNELV   57 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHH-HHHHHHHHHh
Confidence            358899999999999999999966554 4688777    5555543 3334444444

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

Probab=98.16  E-value=2.9e-06  Score=70.35  Aligned_cols=46  Identities=22%  Similarity=0.263  Sum_probs=32.1

Q ss_pred             cccccchhHHHHHHHHh-cCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          160 NTVGLDDRMEELLDLLI-EGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~-~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++||+++.++|...|. ..+...+.+-|+|.+|+|||||.+.++..
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~   47 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDR   47 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999994 23455789999999999999999999984

>TIGR00767 rho transcription termination factor Rho

Probab=98.14  E-value=3e-06  Score=78.55  Aligned_cols=57  Identities=7%  Similarity=-0.159  Sum_probs=47.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC--CCHHHHHHHHHHHhhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ--YDPDQILDTVTWLSRR  239 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~--~~~~~ll~~Il~~l~~  239 (290)
                      =..++|+|++|+|||||++.+++.... +||+.++||.+++.  +++.++++.|+..+-.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vva  226 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVA  226 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEE
Confidence            467899999999999999999995433 37999999999966  7999999999765543

Members of this family differ in the specificity of RNA binding.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.14  E-value=3.4e-06  Score=66.04  Aligned_cols=59  Identities=12%  Similarity=0.109  Sum_probs=44.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcccccccc-----CCeeEEEECCCCCCHHHHHHHHHHHhhhcCC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHY-----FDYLAWIPAPYQYDPDQILDTVTWLSRRNLS  242 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~-----F~~~~wV~vs~~~~~~~ll~~Il~~l~~~~~  242 (290)
                      -+.+.|+|.+|+||||+++.+.++.  ...     -...+|+.++...+...+.+.|+.++.....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~   67 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQL--NAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK   67 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHH--HHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHh--HHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc
Confidence            5678899999999999999998832  221     2346799998888999999999999987655

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

Probab=97.99  E-value=2.1e-05  Score=74.12  Aligned_cols=69  Identities=10%  Similarity=0.061  Sum_probs=56.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      .++++.+...+.+...|...    ..|.+.|++|+||||+|+.+.+......+|+.+.||+++++++..+++.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence            45788899999999988853    3567799999999999999988554455788999999999988776654

>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=97.76  E-value=7.6e-05  Score=58.50  Aligned_cols=60  Identities=17%  Similarity=0.148  Sum_probs=42.4

Q ss_pred             cccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC
Q 047336          162 VGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~  225 (290)
                      +|++.....+...+...  ....+-|+|.+|+|||||++.+++.  ....-...+++..+....
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~~~~~~   60 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANE--LFRPGAPFLYLNASDLLE   60 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHH--hhcCCCCeEEEehhhhhh
Confidence            36677788888877653  3567889999999999999999984  322223456666655443

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.76  E-value=0.00035  Score=61.74  Aligned_cols=70  Identities=14%  Similarity=0.095  Sum_probs=45.1

Q ss_pred             hHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhhh
Q 047336          167 RMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRR  239 (290)
Q Consensus       167 ~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~~  239 (290)
                      ...+..+.+... .....++.|+|++|+|||||++.+++..... .+ ..+|+. +...+..++++.|...+..
T Consensus        27 ~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~~-~~~~~~~~~l~~i~~~lG~   97 (269)
T TIGR03015        27 GHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKLV-NTRVDAEDLLRMVAADFGL   97 (269)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeeee-CCCCCHHHHHHHHHHHcCC
Confidence            334455544432 2235578899999999999999999854321 11 233443 3356778888888877754

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.

>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=97.69  E-value=3.2e-05  Score=66.22  Aligned_cols=43  Identities=28%  Similarity=0.412  Sum_probs=35.6

Q ss_pred             ccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          161 TVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++||+.+.++|.+++..+.  ...+.|+|+.|+|||+|++.+.+.
T Consensus         1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~~   43 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFINE   43 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHHH
Confidence            5899999999999998654  678889999999999999999983

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>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=97.64  E-value=5.6e-05  Score=64.82  Aligned_cols=52  Identities=19%  Similarity=0.170  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      .++||.++-++.+.-++..   ....+.-+-.||++|+||||||+.+-+  .....|
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~   78 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIAN--ELGVNF   78 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHH--HCT--E
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHh--ccCCCe
Confidence            5789999988887666543   245688888999999999999999998  444445

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.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=97.62  E-value=0.00017  Score=64.03  Aligned_cols=105  Identities=19%  Similarity=0.163  Sum_probs=82.5

Q ss_pred             cHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhcCCchHHHHHHHHHHHHH
Q 047336            3 ISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTIMDEINCFTY   82 (290)
Q Consensus         3 ~~v~~~l~kL~~~~l~~e~~~~~~v~~~v~~L~~eL~~i~~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~Wl~~lr~~a~   82 (290)
                      +.|.+++.+|- .+.......+.-++++++-++.+|+++|.||+....           ...........+..++-..||
T Consensus       296 GyVdFlL~NLk-dfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~e-----------e~~nkh~~~ed~a~~ii~kAy  363 (402)
T PF12061_consen  296 GYVDFLLKNLK-DFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVE-----------EPHNKHDTNEDCATQIIRKAY  363 (402)
T ss_pred             cHHHHHHhhHH-HHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHh-----------ccchhhhhhhhHHHHHHHHHh
Confidence            46889999999 998888888889999999999999999999999861           222223348899999999999


Q ss_pred             HhHhHHHHHHhhhhccccccccccchh-hhhHhHHHHHHHHHHHHH
Q 047336           83 ESGKVIDTLINSITQQKSQSRYNKDIC-DALQGLQSRITEIKQRVQ  127 (290)
Q Consensus        83 d~eD~lD~~~~~~~~~~g~~~~~~~~~-~~~~~ia~~i~~i~~~l~  127 (290)
                      ++|.++|.+....        ...++. .+...+..+|+-++++++
T Consensus       364 evEYVVDaCi~k~--------~P~Wcl~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  364 EVEYVVDACISKS--------VPHWCLERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             heeeeeehhhcCC--------CcHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999985322        112222 566788888888887764

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=0.00045  Score=64.12  Aligned_cols=78  Identities=15%  Similarity=0.121  Sum_probs=60.4

Q ss_pred             CcccccchhHHHHHHHHhc--CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCe--eEEEECCCCCCHHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDY--LAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~--~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~--~~wV~vs~~~~~~~ll~~Il  234 (290)
                      ..+.+|+++.+++...|..  .+....-+-|.|..|.|||+.++.|.+  +++.....  .+.|..-...+...++..|+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence            3499999999999998864  122222388999999999999999999  44443221  57777777788899999999


Q ss_pred             HHhh
Q 047336          235 WLSR  238 (290)
Q Consensus       235 ~~l~  238 (290)
                      +++.
T Consensus        95 ~~~~   98 (366)
T COG1474          95 NKLG   98 (366)
T ss_pred             HHcC
Confidence            9887

>PRK07261 topology modulation protein; Provisional

Probab=97.56  E-value=0.00016  Score=59.86  Aligned_cols=52  Identities=17%  Similarity=0.228  Sum_probs=33.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcccccc-ccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVK-HYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~-~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      .|.|+|++|+||||||+.+.....+. -+.|...|-.-....+..++...+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~   54 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISN   54 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHH
Confidence            48899999999999999987643322 24666666443333344444444433

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.54  E-value=0.0005  Score=62.92  Aligned_cols=76  Identities=17%  Similarity=0.208  Sum_probs=63.9

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCc-EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHH
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQL-SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~-~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      ++.+.+|+.....|..++...+..+ +.+-|.|-.|.|||.+.+.+++..  ..   ..+|+++-.-|+.+.++..|+.+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~---~~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL--NL---ENVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc--CC---cceeeehHHhccHHHHHHHHHHH
Confidence            5678899999999999888766544 444889999999999999999944  22   36899999999999999999999


Q ss_pred             hh
Q 047336          237 SR  238 (290)
Q Consensus       237 l~  238 (290)
                      ..
T Consensus        80 ~~   81 (438)
T KOG2543|consen   80 SQ   81 (438)
T ss_pred             hc
Confidence            85

>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=97.44  E-value=9.9e-05  Score=56.99  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||.|.|++|+||||+|+.+-+
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

...

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.42  E-value=0.00018  Score=65.99  Aligned_cols=46  Identities=11%  Similarity=0.320  Sum_probs=40.4

Q ss_pred             cccccchhHHHHHHHHhcC----CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          160 NTVGLDDRMEELLDLLIEG----PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~----~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +++|.++.++++++++...    +...+++.++|++|+||||||+.+.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999752    345789999999999999999999873

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

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=97.34  E-value=0.00035  Score=63.64  Aligned_cols=72  Identities=11%  Similarity=0.146  Sum_probs=44.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      .+.++|.+.-...++   ..  ..++.+-.||++|+||||||+.+-+..+-..    .-+|.+|..-.-..=.++|+++.
T Consensus       143 Q~hlv~q~gllrs~i---eq--~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~a  213 (554)
T KOG2028|consen  143 QSHLVGQDGLLRSLI---EQ--NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQA  213 (554)
T ss_pred             hhhhcCcchHHHHHH---Hc--CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHH
Confidence            344555544333333   22  3488888999999999999999998443322    44666665544444455555554


Q ss_pred             h
Q 047336          238 R  238 (290)
Q Consensus       238 ~  238 (290)
                      .
T Consensus       214 q  214 (554)
T KOG2028|consen  214 Q  214 (554)
T ss_pred             H
Confidence            4

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.33  E-value=0.00019  Score=64.84  Aligned_cols=47  Identities=19%  Similarity=0.234  Sum_probs=38.7

Q ss_pred             CcccccchhHHHHHHHHhcC---CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEG---PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~---~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|+++.++.|..++...   ......+-++|++|+||||||+.+.+.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~   53 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANE   53 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999988641   234556779999999999999999883

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.30  E-value=0.00039  Score=65.67  Aligned_cols=44  Identities=20%  Similarity=0.274  Sum_probs=33.9

Q ss_pred             CcccccchhHHH---HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEE---LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~---L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++||.+.....   |.+++..+.  ...+-++|++|+||||||+.+.+
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~--~~~ilL~GppGtGKTtLA~~ia~   58 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGR--LSSMILWGPPGTGKTTLARIIAG   58 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            357887766555   666665443  55677899999999999999988

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.28  E-value=0.00033  Score=64.05  Aligned_cols=47  Identities=21%  Similarity=0.222  Sum_probs=39.0

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|++..++.+..++..   .......+-++|++|+||||||+.+.+.
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~   74 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANE   74 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence            5699999999999888864   2334567789999999999999999884

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.26  E-value=0.0021  Score=65.01  Aligned_cols=83  Identities=11%  Similarity=0.005  Sum_probs=59.2

Q ss_pred             CCcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhccccc---cccCC--eeEEEECCCCCCHHHH
Q 047336          158 NRNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNSSYV---KHYFD--YLAWIPAPYQYDPDQI  229 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v---~~~F~--~~~wV~vs~~~~~~~l  229 (290)
                      ++.++|||++.++|...|..   +...-.++-|.|++|.|||+.++.|.+...-   ...+.  ..++|....-.+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            35689999999999999875   3333467789999999999999999873211   11222  1455655555567788


Q ss_pred             HHHHHHHhhhc
Q 047336          230 LDTVTWLSRRN  240 (290)
Q Consensus       230 l~~Il~~l~~~  240 (290)
                      ...|.++|...
T Consensus       834 YqvI~qqL~g~  844 (1164)
T PTZ00112        834 YQVLYKQLFNK  844 (1164)
T ss_pred             HHHHHHHHcCC
Confidence            88888888543

>PRK06696 uridine kinase; Validated

Probab=97.25  E-value=0.00042  Score=59.86  Aligned_cols=41  Identities=24%  Similarity=0.212  Sum_probs=33.9

Q ss_pred             cchhHHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          164 LDDRMEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       164 ~e~~~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..-.++|.+.+.. ......+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~   44 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAE   44 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            45567788888875 345689999999999999999999987

>PRK07667 uridine kinase; Provisional

Probab=97.17  E-value=0.00057  Score=57.68  Aligned_cols=37  Identities=19%  Similarity=0.218  Sum_probs=31.3

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.|.+.+........+|+|-|.+|.||||||+.+..
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~   39 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKE   39 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4677777776556679999999999999999999987

>PTZ00301 uridine kinase; Provisional

Probab=97.16  E-value=0.00043  Score=59.27  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            57999999999999999988765

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=97.11  E-value=0.00041  Score=60.62  Aligned_cols=20  Identities=20%  Similarity=0.238  Sum_probs=17.1

Q ss_pred             EEcCCCCChhHHHHHHhccc
Q 047336          187 ILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       187 IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |+||+|+||||+++.+.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999998843

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF05729 NACHT: NACHT domain

Probab=97.06  E-value=0.00067  Score=54.79  Aligned_cols=42  Identities=14%  Similarity=0.064  Sum_probs=30.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcccccccc----CCeeEEEECCCCC
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHY----FDYLAWIPAPYQY  224 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~----F~~~~wV~vs~~~  224 (290)
                      +++.|+|.+|+||||+++.+..+-.-...    |...+|++.+...
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   46 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDIS   46 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhh
Confidence            47889999999999999999874332222    4566777765533

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

Probab=97.03  E-value=0.0012  Score=60.88  Aligned_cols=68  Identities=10%  Similarity=0.067  Sum_probs=41.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      ...++|-+....++++   .  ..+.-.-.||++|+||||||+.+-.  ....+|     ..+|...+-.+=++.|+++.
T Consensus        29 Q~HLlg~~~~lrr~v~---~--~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f-----~~~sAv~~gvkdlr~i~e~a   96 (436)
T COG2256          29 QEHLLGEGKPLRRAVE---A--GHLHSMILWGPPGTGKTTLARLIAG--TTNAAF-----EALSAVTSGVKDLREIIEEA   96 (436)
T ss_pred             hHhhhCCCchHHHHHh---c--CCCceeEEECCCCCCHHHHHHHHHH--hhCCce-----EEeccccccHHHHHHHHHHH
Confidence            3445555555444433   2  3466677899999999999999987  334444     44555444444445555444

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.00  E-value=0.00085  Score=65.07  Aligned_cols=45  Identities=11%  Similarity=0.306  Sum_probs=39.5

Q ss_pred             cccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|.++.+++|++.|..    -+.+-+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            589999999999999943    245568999999999999999999987

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

Probab=97.00  E-value=0.00082  Score=66.02  Aligned_cols=53  Identities=17%  Similarity=0.323  Sum_probs=43.8

Q ss_pred             CCcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          158 NRNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      +.+-+|.++.+++|+++|.-    ...+-++++.||++|+|||+|++.|-+  .....|
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf  378 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF  378 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE
Confidence            45679999999999999964    344568999999999999999999987  555555

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.99  E-value=0.0006  Score=55.33  Aligned_cols=23  Identities=17%  Similarity=0.164  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-|.|.||+|+|||||++.+-+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e   27 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAE   27 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHH
Confidence            45689999999999999999987

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.94  E-value=0.00072  Score=57.65  Aligned_cols=26  Identities=19%  Similarity=0.340  Sum_probs=23.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+..+|+|.|.+|+|||||++.+...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999873

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.92  E-value=0.005  Score=53.02  Aligned_cols=53  Identities=15%  Similarity=0.135  Sum_probs=38.5

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHH
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll  230 (290)
                      |..+-..-.++-|+|.+|+||||||.++..+  ....-..++||+.- .++...+.
T Consensus        16 l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~~   68 (225)
T PRK09361         16 LGGGFERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERFK   68 (225)
T ss_pred             hcCCCCCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHHH
Confidence            3344456789999999999999999888763  22334678999987 66665543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.90  E-value=0.0013  Score=56.51  Aligned_cols=54  Identities=11%  Similarity=0.099  Sum_probs=37.1

Q ss_pred             cchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC
Q 047336          164 LDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP  221 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs  221 (290)
                      -+...+.+.+++..  .....+-|+|..|+||||||+.+++.  ........++++++
T Consensus        22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~   75 (226)
T TIGR03420        22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLA   75 (226)
T ss_pred             cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHH
Confidence            45566777777553  23567789999999999999999983  33333445555543

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=96.89  E-value=0.0012  Score=65.52  Aligned_cols=61  Identities=13%  Similarity=0.119  Sum_probs=44.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCC---eeEEEECC
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFD---YLAWIPAP  221 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~---~~~wV~vs  221 (290)
                      ++++|.+..+..+...+...  ....+.|+|++|+||||||+.+++.......+.   ..-|+.+.
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEe
Confidence            46899999999888777533  356799999999999999999998543333332   24566664

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.86  E-value=0.00089  Score=55.38  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=21.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            579999999999999999999874

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.86  E-value=0.00077  Score=56.83  Aligned_cols=21  Identities=19%  Similarity=0.303  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||+|.|.+|+||||||+.+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999987

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 ....

>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=96.85  E-value=0.0008  Score=52.03  Aligned_cols=21  Identities=24%  Similarity=0.227  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|.|..|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999883

...

>PRK04195 replication factor C large subunit; Provisional

Probab=96.84  E-value=0.003  Score=60.93  Aligned_cols=47  Identities=17%  Similarity=0.224  Sum_probs=39.7

Q ss_pred             CcccccchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+|+..-  ....+.+-|+|++|+||||+|+.+.++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999742  222677889999999999999999884

>TIGR00235 udk uridine kinase

Probab=96.83  E-value=0.00094  Score=56.90  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.-.+|+|+|+.|+|||||++.+..
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            4467999999999999999999986

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

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

Probab=96.83  E-value=0.0014  Score=57.88  Aligned_cols=47  Identities=21%  Similarity=0.246  Sum_probs=39.8

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.+|.++-+++|.=.+..   ....+--+-++|++|+||||||..+-+.
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~E   75 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANE   75 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence            4689999999988877764   2456888999999999999999999983

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.83  E-value=0.0018  Score=56.10  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=23.3

Q ss_pred             CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          179 PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       179 ~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+..+|+|.|..|.|||||++.+..
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999998876

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.80  E-value=0.0033  Score=53.41  Aligned_cols=52  Identities=13%  Similarity=0.124  Sum_probs=38.0

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      .+=+.-+++-|+|.+|+|||+|+..+..+  ....-..++||+... ++...+.+
T Consensus         7 GGi~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237         7 GGVERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH
Confidence            34456789999999999999999887652  333456789999865 66555444

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

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.78  E-value=0.0015  Score=59.67  Aligned_cols=44  Identities=20%  Similarity=0.191  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+.  .+.+-++|+.|+||||+|+.+.+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~   58 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALAR   58 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            468899999999999887643  45577999999999999999876

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

Probab=96.77  E-value=0.0025  Score=64.23  Aligned_cols=50  Identities=18%  Similarity=0.230  Sum_probs=36.0

Q ss_pred             CcccccchhHH---HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          159 RNTVGLDDRME---ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       159 ~~~vG~e~~~~---~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      ++++|.+....   .|.+.+..+  .+..+-++|++|+||||||+.+.+  ....+|
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~--~~~~~f   80 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIAN--HTRAHF   80 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHH--HhcCcc
Confidence            45788877664   454555443  356677999999999999999998  444444

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.76  E-value=0.0014  Score=60.87  Aligned_cols=47  Identities=15%  Similarity=0.172  Sum_probs=37.8

Q ss_pred             CCcccccchhHHHHHHHHhc---C--------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          158 NRNTVGLDDRMEELLDLLIE---G--------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~---~--------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++.|++..+++|.+.+..   .        -...+-+-++|++|+||||||+.+.+
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~  178 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH  178 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999987742   1        12245588999999999999999998

Many proteins may score above the trusted cutoff because an internal

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.75  E-value=0.0015  Score=53.99  Aligned_cols=36  Identities=19%  Similarity=0.262  Sum_probs=28.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEE
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWI  218 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV  218 (290)
                      ...+|.+.|+.|+||||+|+.+++  .....+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            456899999999999999999998  444455555554

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.75  E-value=0.017  Score=51.79  Aligned_cols=82  Identities=11%  Similarity=0.094  Sum_probs=57.2

Q ss_pred             Ccccccch---hHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhcccccc-----ccCCeeEEEECCCCCCHHHH
Q 047336          159 RNTVGLDD---RMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVK-----HYFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       159 ~~~vG~e~---~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~-----~~F~~~~wV~vs~~~~~~~l  229 (290)
                      +..||...   ..+.|.++|... ....+-+-|||..|.||||+++......-..     ..+ .++.|..+..++...+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRF  112 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHH
Confidence            34566433   344444444432 3456778999999999999999988632111     112 4777888999999999


Q ss_pred             HHHHHHHhhhcC
Q 047336          230 LDTVTWLSRRNL  241 (290)
Q Consensus       230 l~~Il~~l~~~~  241 (290)
                      ...||.++....
T Consensus       113 Y~~IL~~lgaP~  124 (302)
T PF05621_consen  113 YSAILEALGAPY  124 (302)
T ss_pred             HHHHHHHhCccc
Confidence            999999998653

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.69  E-value=0.0054  Score=55.43  Aligned_cols=45  Identities=18%  Similarity=0.195  Sum_probs=38.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++..+.|.+++..+.  .+.+-++|..|+||||+|+.+.+.
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~   61 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE   61 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999987643  445789999999999999999873

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.67  E-value=0.0022  Score=49.48  Aligned_cols=38  Identities=16%  Similarity=0.109  Sum_probs=26.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      ..+.|+|++|+||||+++.+...  ........+.+..+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~~   40 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGED   40 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCEE
Confidence            57889999999999999999883  333222345555443

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.67  E-value=0.0085  Score=54.41  Aligned_cols=78  Identities=14%  Similarity=0.218  Sum_probs=55.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc----ccccccCCeeEEEE-CCCCCCHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS----SYVKHYFDYLAWIP-APYQYDPDQILDTV  233 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d----~~v~~~F~~~~wV~-vs~~~~~~~ll~~I  233 (290)
                      .+++|.+..++.|.+++..+. -...+-++|+.|+||||||+.+...    .....|+|...|.. -+....++. .+++
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~   81 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNI   81 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHH
Confidence            358899999999999987653 2346678899999999999888762    12346788877776 355566666 4455


Q ss_pred             HHHhh
Q 047336          234 TWLSR  238 (290)
Q Consensus       234 l~~l~  238 (290)
                      .+.+.
T Consensus        82 ~~~~~   86 (313)
T PRK05564         82 IEEVN   86 (313)
T ss_pred             HHHHh
Confidence            56554

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.63  E-value=0.0016  Score=54.12  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.++|.|+|++|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998875

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.63  E-value=0.0019  Score=66.26  Aligned_cols=44  Identities=16%  Similarity=0.289  Sum_probs=36.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++||+.+.+.++++|.....  +-+-++|.+|+|||++|+.+..
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~--~n~lL~G~pGvGKTal~~~la~  222 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTK--NNPILIGEPGVGKTAIAEGLAQ  222 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccccc--CCeEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999987542  2335999999999999988866

>PRK06547 hypothetical protein; Provisional

Probab=96.60  E-value=0.0032  Score=52.17  Aligned_cols=26  Identities=19%  Similarity=0.121  Sum_probs=23.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....+|+|.|+.|+||||||+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999999999764

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.59  E-value=0.0075  Score=52.13  Aligned_cols=55  Identities=15%  Similarity=0.195  Sum_probs=39.2

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhcccccccc----CCeeEEEECCCCCCHHHHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHY----FDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~----F~~~~wV~vs~~~~~~~ll~  231 (290)
                      .+-..-.++.|+|.+|+|||||+.++.-.......    -..++|++-..+|+..++.+
T Consensus        14 GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          14 GGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            34456789999999999999999988642222221    35789999888887655543

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 .

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.59  E-value=0.0027  Score=56.11  Aligned_cols=45  Identities=20%  Similarity=0.221  Sum_probs=32.9

Q ss_pred             cccccchhHHHHHHH---Hhc-------C---CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDL---LIE-------G---PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~---L~~-------~---~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|.+..++.|.+.   +..       +   .+...-+-++|++|+||||+|+.+.+
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHH
Confidence            488988887776543   311       1   23456677899999999999999975

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.

>PRK06762 hypothetical protein; Provisional

Probab=96.59  E-value=0.0018  Score=53.00  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+|.|.|+.|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998873

>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=96.57  E-value=0.0018  Score=51.30  Aligned_cols=21  Identities=10%  Similarity=0.211  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||-++|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578899999999999999985

...

>PF13173 AAA_14: AAA domain

Probab=96.56  E-value=0.0026  Score=49.86  Aligned_cols=40  Identities=10%  Similarity=0.093  Sum_probs=30.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQY  224 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~  224 (290)
                      -+++.|.|+-|+|||||++.++.+..   .....++++.....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~   41 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPR   41 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHH
Confidence            46889999999999999999987432   33456777765543

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=96.54  E-value=0.017  Score=54.48  Aligned_cols=81  Identities=11%  Similarity=0.023  Sum_probs=54.8

Q ss_pred             CCCcccccchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhccccccc-cCCeeEEEECCCCCCHHHHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH-YFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      .++.++||+.++..+.+|+...  .....-+=|.|-+|.|||.+...||.+..-.. .|. .+.+.--.=-....++..|
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~-~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPV-TVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccce-eEEEeeccccchHHHHHHH
Confidence            4567999999999999999852  33455566789999999999999998542211 122 2333221112356778888


Q ss_pred             HHHhh
Q 047336          234 TWLSR  238 (290)
Q Consensus       234 l~~l~  238 (290)
                      ...+.
T Consensus       227 ~~~~~  231 (529)
T KOG2227|consen  227 FSSLL  231 (529)
T ss_pred             HHHHH
Confidence            77773

>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=96.54  E-value=0.0018  Score=45.14  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|+|.|..|+||||+++.+-+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988874

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.53  E-value=0.0027  Score=65.29  Aligned_cols=79  Identities=15%  Similarity=0.148  Sum_probs=51.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcccc---cc-ccCCeeEE-EECCC-----CC--CH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSY---VK-HYFDYLAW-IPAPY-----QY--DP  226 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~---v~-~~F~~~~w-V~vs~-----~~--~~  226 (290)
                      ..++|++.+..+++..|....  ..-+-++|.+|+||||||+.+...-.   +. ...+.++| +.++.     .+  ..
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~  264 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEF  264 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHH
Confidence            468999999999999998754  23344899999999999998876311   11 12344454 22221     22  33


Q ss_pred             HHHHHHHHHHhhh
Q 047336          227 DQILDTVTWLSRR  239 (290)
Q Consensus       227 ~~ll~~Il~~l~~  239 (290)
                      ..-++.++..+..
T Consensus       265 e~~lk~ii~e~~~  277 (852)
T TIGR03345       265 ENRLKSVIDEVKA  277 (852)
T ss_pred             HHHHHHHHHHHHh
Confidence            4567777776643

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.49  E-value=0.0023  Score=54.75  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.+|||-|.+|+||||+|+.+++
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH
Confidence            4568999999999999999999998

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.48  E-value=0.003  Score=59.27  Aligned_cols=47  Identities=15%  Similarity=0.179  Sum_probs=37.7

Q ss_pred             CcccccchhHHHHHHHHhc---C--------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---G--------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~--------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|+++.+++|.+.+..   .        -...+-|-++|++|+|||+||+.+.+.
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            4689999999999987642   1        133556788999999999999999983

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.48  E-value=0.0017  Score=54.86  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|..|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.45  E-value=0.0036  Score=56.72  Aligned_cols=46  Identities=15%  Similarity=0.113  Sum_probs=38.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+...+.+..++..+. -..++-++|++|+||||+|+.+++.
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~   66 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNE   66 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHH
Confidence            568999999999999988643 3467777999999999999999883

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.44  E-value=0.0082  Score=62.09  Aligned_cols=65  Identities=17%  Similarity=0.249  Sum_probs=49.2

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC-CCCCHHHHHHHHHHHhhh
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP-YQYDPDQILDTVTWLSRR  239 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs-~~~~~~~ll~~Il~~l~~  239 (290)
                      +..|.+.|... ...+++.|.|++|.|||||+......      ++.++|+++. .+-++..++..++..+..
T Consensus        19 R~rl~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~   84 (903)
T PRK04841         19 RERLLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQ   84 (903)
T ss_pred             chHHHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHH
Confidence            34566666543 45889999999999999999987752      3479999996 445677888888888853

>PLN03025 replication factor C subunit; Provisional

Probab=96.43  E-value=0.0033  Score=57.25  Aligned_cols=44  Identities=18%  Similarity=0.228  Sum_probs=35.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++..+.|..++..+.  .+-+-++|++|+||||+|+.+.+
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~   56 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAH   56 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            458898888888888776543  44466899999999999998876

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.43  E-value=0.01  Score=50.99  Aligned_cols=52  Identities=13%  Similarity=0.211  Sum_probs=37.4

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccC------CeeEEEECCCCCCHHHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF------DYLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F------~~~~wV~vs~~~~~~~ll  230 (290)
                      .+-..-.++.|+|.+|+|||||+..+.-..  ...-      ..++|++....++...+.
T Consensus        14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCCcCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            444567899999999999999998876521  1222      456888888777765554

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.

>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=96.42  E-value=0.0021  Score=49.90  Aligned_cols=51  Identities=12%  Similarity=0.047  Sum_probs=33.2

Q ss_pred             EEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC-----CCHHHHHHHHHHHhhhc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ-----YDPDQILDTVTWLSRRN  240 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~-----~~~~~ll~~Il~~l~~~  240 (290)
                      |-|+|++|+||||||+.+.++-  ..+   .+.+..+.-     -+...-+.+++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~~---~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~   56 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GFP---FIEIDGSELISSYAGDSEQKIRDFFKKAKKS   56 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TSE---EEEEETTHHHTSSTTHHHHHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--ccc---ccccccccccccccccccccccccccccccc
Confidence            4589999999999999999843  212   345554321     13445666777665443

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 ....

>PRK03839 putative kinase; Provisional

Probab=96.41  E-value=0.0023  Score=53.10  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

>PRK04040 adenylate kinase; Provisional

Probab=96.41  E-value=0.0025  Score=53.57  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|+|++|+||||+++.+.+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            36899999999999999999977

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.39  E-value=0.022  Score=49.90  Aligned_cols=50  Identities=12%  Similarity=0.036  Sum_probs=31.0

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      ...+.++...-......+-++|.+|+|||+||..+.+.  ....-..+++++
T Consensus        85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~--l~~~g~~v~~it  134 (244)
T PRK07952         85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNE--LLLRGKSVLIIT  134 (244)
T ss_pred             HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEE
Confidence            34444444322223456789999999999999999984  332223445554

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.38  E-value=0.003  Score=61.16  Aligned_cols=46  Identities=22%  Similarity=0.148  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+++..+. -...+-++|++|+||||+|+.+.+.
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~   59 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMA   59 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999888653 2245689999999999999988763

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.36  E-value=0.012  Score=52.70  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|+++|+.|+||||++..+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~  216 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAA  216 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988766

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

Probab=96.34  E-value=0.004  Score=63.12  Aligned_cols=79  Identities=16%  Similarity=0.154  Sum_probs=51.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc---ccccc-CCeeEEEEC-C-----CCC--CH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS---YVKHY-FDYLAWIPA-P-----YQY--DP  226 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~---~v~~~-F~~~~wV~v-s-----~~~--~~  226 (290)
                      +.++|++++.+.++..|....  ..-+-++|.+|+|||++|+.+...-   .+... .++++|..- +     ..+  +.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~  259 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDF  259 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchH
Confidence            468999999999999887654  2234589999999999999887732   11111 245555421 1     112  34


Q ss_pred             HHHHHHHHHHhhh
Q 047336          227 DQILDTVTWLSRR  239 (290)
Q Consensus       227 ~~ll~~Il~~l~~  239 (290)
                      ..-+++++..+..
T Consensus       260 e~~l~~i~~~~~~  272 (731)
T TIGR02639       260 EERLKAVVSEIEK  272 (731)
T ss_pred             HHHHHHHHHHHhc
Confidence            4566777766643

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.33  E-value=0.0021  Score=55.40  Aligned_cols=21  Identities=14%  Similarity=0.245  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|..|+||||||+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            589999999999999999876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.33  E-value=0.0042  Score=63.97  Aligned_cols=44  Identities=16%  Similarity=0.271  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|++.+...++..|....  ..-+-++|.+|+||||||+.+-.
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~  221 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQ  221 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHH
Confidence            459999999999999998754  22344899999999999988776

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.30  E-value=0.0035  Score=53.43  Aligned_cols=31  Identities=26%  Similarity=0.318  Sum_probs=25.8

Q ss_pred             HHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          174 LLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       174 ~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      |+..+......|.|+|+.|+|||||++.+.+
T Consensus         5 ~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738          5 WLFNKPAKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             cccCCCCCCeEEEEECcCCCCHHHHHHHHHh
Confidence            4444556788999999999999999999976

>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=96.30  E-value=0.0048  Score=48.78  Aligned_cols=44  Identities=14%  Similarity=0.200  Sum_probs=31.5

Q ss_pred             EEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHH
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      |-++|.+|+|||+||+.+..  ....   ...-+.++...+..+++...
T Consensus         2 vlL~G~~G~GKt~l~~~la~--~~~~---~~~~i~~~~~~~~~dl~g~~   45 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA--LLGR---PVIRINCSSDTTEEDLIGSY   45 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH--HHTC---EEEEEE-TTTSTHHHHHCEE
T ss_pred             EEEECCCCCCHHHHHHHHHH--Hhhc---ceEEEEeccccccccceeee
Confidence            45899999999999999987  3311   23446778888888776543

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.

>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=96.28  E-value=0.0035  Score=52.24  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|+|.|..|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999873

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.28  E-value=0.022  Score=54.11  Aligned_cols=24  Identities=17%  Similarity=0.173  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.++|.+|+||||++..+..
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~  117 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLAR  117 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999999988876

>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=96.28  E-value=0.0027  Score=50.39  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||.|+|..|+||||+|+.+-.
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998876

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

Probab=96.27  E-value=0.0057  Score=54.00  Aligned_cols=53  Identities=19%  Similarity=0.171  Sum_probs=40.0

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      .+=+.-+++.|.|.+|+|||+++.+.-.  ....++..++||+...++  ..+++..
T Consensus        18 GG~p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~~--~~l~~~~   70 (260)
T COG0467          18 GGLPRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEESP--EELLENA   70 (260)
T ss_pred             CCCcCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCCH--HHHHHHH
Confidence            4446788999999999999999977666  445568899999988753  3444443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.27  E-value=0.0085  Score=51.65  Aligned_cols=43  Identities=14%  Similarity=0.247  Sum_probs=28.4

Q ss_pred             cccchhH-HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          162 VGLDDRM-EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       162 vG~e~~~-~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.+... ..+.++.. +......+-|+|..|+|||+||+.+++.
T Consensus        22 ~~~~~~~~~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         22 AGENAELVARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             cCCcHHHHHHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4544333 33333333 2233456789999999999999999883

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.26  E-value=0.0042  Score=51.47  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++++|+|..|+|||||++.+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHH
Confidence            467999999999999999999987

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.25  E-value=0.0035  Score=50.12  Aligned_cols=39  Identities=13%  Similarity=0.087  Sum_probs=27.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      ++|+|+|.-|+|||||++.+.+.. .+..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEEccC
Confidence            589999999999999999999842 223455555666555

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.0051  Score=60.62  Aligned_cols=53  Identities=19%  Similarity=0.402  Sum_probs=44.0

Q ss_pred             CCcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          158 NRNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      +.+-+|+++-+++|.+++--    ++.+-++++.+|++|+|||++|+.|-.  .....|
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkF  466 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKF  466 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCce
Confidence            45679999999999999863    456778999999999999999999987  444444

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.23  E-value=0.0028  Score=53.30  Aligned_cols=22  Identities=18%  Similarity=0.110  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999884

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.23  E-value=0.0035  Score=51.84  Aligned_cols=22  Identities=14%  Similarity=0.283  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|+|+.|+|||||++.+.+
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999999988

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.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.22  E-value=0.0098  Score=49.58  Aligned_cols=22  Identities=14%  Similarity=0.058  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~   23 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAER   23 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999873

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.22  E-value=0.012  Score=59.12  Aligned_cols=45  Identities=18%  Similarity=0.166  Sum_probs=35.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++||.+..++.|.+++..+.- ...+-++|..|+||||+|+.+-+
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL-~HAyLFtGPpGvGKTTlAriLAK   60 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRL-HHAYLFTGTRGVGKTTLSRIFAK   60 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCC-CeEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999886542 22334899999999999886654

>PRK13975 thymidylate kinase; Provisional

Probab=96.21  E-value=0.0089  Score=50.12  Aligned_cols=23  Identities=13%  Similarity=-0.006  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+|.|.|+.|+||||+++.+.+.
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999983

>PRK06217 hypothetical protein; Validated

Probab=96.21  E-value=0.014  Score=48.65  Aligned_cols=36  Identities=19%  Similarity=0.284  Sum_probs=26.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccC--CeeEEEE
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYF--DYLAWIP  219 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F--~~~~wV~  219 (290)
                      ..|.|.|++|+||||||+.+-..... .+|  |...|-.
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~~   39 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWLP   39 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeecc
Confidence            35889999999999999999874433 233  4455643

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.19  E-value=0.0078  Score=54.07  Aligned_cols=24  Identities=13%  Similarity=0.133  Sum_probs=21.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ....+|||.|..|+||||||+.+-
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~   83 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQ   83 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            567899999999999999998663

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.19  E-value=0.0038  Score=51.69  Aligned_cols=23  Identities=13%  Similarity=0.193  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999998663

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.

>PRK12377 putative replication protein; Provisional

Probab=96.19  E-value=0.027  Score=49.52  Aligned_cols=38  Identities=13%  Similarity=0.035  Sum_probs=29.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP  221 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs  221 (290)
                      ...+-++|..|+|||+||..+.+  .+....-.+++++++
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~--~l~~~g~~v~~i~~~  138 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGN--RLLAKGRSVIVVTVP  138 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCCeEEEEHH
Confidence            45788999999999999999999  444444446777654

>cd01394 radB RadB

Probab=96.18  E-value=0.018  Score=49.19  Aligned_cols=49  Identities=16%  Similarity=0.060  Sum_probs=32.9

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~  225 (290)
                      |..+=..-.++-|.|.+|+|||||+.++...  ....=..++|++....++
T Consensus        12 l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          12 LGGGVERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             hcCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH
Confidence            3334456789999999999999999887652  222223466776655443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.18  E-value=0.005  Score=49.30  Aligned_cols=40  Identities=8%  Similarity=0.136  Sum_probs=28.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~  225 (290)
                      ++.|.|.+|+||||+++.+..  .....-..++|++....++
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~--~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLAL--NIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHH--HHHhcCCEEEEEECCcchH
Confidence            467999999999999999877  3333345567777665543

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.16  E-value=0.008  Score=47.59  Aligned_cols=41  Identities=15%  Similarity=0.151  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          166 DRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       166 ~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ++..++.+.|...-..-.+|.+.|.-|.|||||++.+....
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34555666555432335589999999999999999999844

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.

>PHA00729 NTP-binding motif containing protein

Probab=96.16  E-value=0.0075  Score=52.05  Aligned_cols=23  Identities=17%  Similarity=0.281  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|.+|+||||||..+-+
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHH
Confidence            55788999999999999999877

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.12  E-value=0.0047  Score=47.17  Aligned_cols=23  Identities=17%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             EEEEcCCCCChhHHHHHHhcccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSY  207 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~  207 (290)
                      |.|+|..|+|||||.+.+.+.+.
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            68999999999999999887543

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.

>PRK00625 shikimate kinase; Provisional

Probab=96.12  E-value=0.004  Score=51.67  Aligned_cols=21  Identities=14%  Similarity=0.105  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.++||+|+||||+++.+-+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999866

>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=96.12  E-value=0.031  Score=46.10  Aligned_cols=43  Identities=21%  Similarity=0.281  Sum_probs=32.8

Q ss_pred             ccccchhHHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          161 TVGLDDRMEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +||....+.++.+.+.. .....+|+ |+|-.|+||+.+|+.+++
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVl-I~GE~GtGK~~lA~~IH~   44 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVL-ITGETGTGKELLARAIHN   44 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EE-EECSTTSSHHHHHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEE-EEcCCCCcHHHHHHHHHH
Confidence            57888888899888875 22335555 999999999999999999

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 ....

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.11  E-value=0.0035  Score=51.97  Aligned_cols=21  Identities=29%  Similarity=0.260  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||.|+|++|+||||+|+.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999876

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.

>CHL00181 cbbX CbbX; Provisional

Probab=96.11  E-value=0.009  Score=53.66  Aligned_cols=46  Identities=17%  Similarity=0.201  Sum_probs=32.3

Q ss_pred             CcccccchhHHHHHHHH---hc-------C--C-CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLL---IE-------G--P-TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L---~~-------~--~-~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+++|.++.   .-       +  . .....+-++|.+|+||||+|+.+.+
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~   81 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMAD   81 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            35899888888665543   21       1  1 1233477899999999999999966

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.10  E-value=0.0047  Score=50.47  Aligned_cols=24  Identities=8%  Similarity=0.098  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|.++|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458899999999999999999873

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.09  E-value=0.0042  Score=52.68  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=22.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..+|+|-||-|+||||||+.+-+.-
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            5789999999999999999998844

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.08  E-value=0.019  Score=54.01  Aligned_cols=77  Identities=13%  Similarity=0.197  Sum_probs=49.4

Q ss_pred             CcccccchhHHHHHHHHhcC------------CCCcEEEEEEcCCCCChhHHHHHHhccccccccC---CeeEEEECCC-
Q 047336          159 RNTVGLDDRMEELLDLLIEG------------PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF---DYLAWIPAPY-  222 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~------------~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F---~~~~wV~vs~-  222 (290)
                      ..++|.++.++.+.-.+...            +...+-|-++|++|+||||||+.+-.  .....|   +..-++..+. 
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~--~l~~~fi~vdat~~~e~g~v   89 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAK--LANAPFIKVEATKFTEVGYV   89 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHH--HhCCeEEEeecceeecCCcc
Confidence            45899999999887666531            12346788999999999999999987  333333   2222222222 


Q ss_pred             CCCHHHHHHHHHHHh
Q 047336          223 QYDPDQILDTVTWLS  237 (290)
Q Consensus       223 ~~~~~~ll~~Il~~l  237 (290)
                      ..+...+++.+....
T Consensus        90 G~dvE~i~r~l~e~A  104 (441)
T TIGR00390        90 GRDVESMVRDLTDAA  104 (441)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            225667776665544

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.07  E-value=0.0075  Score=57.93  Aligned_cols=45  Identities=16%  Similarity=0.136  Sum_probs=35.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|.+.....|.+.+..+. -...+-++|++|+||||+|+.+.+
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~   58 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAK   58 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999888888877776543 224567899999999999998865

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.07  E-value=0.0056  Score=50.56  Aligned_cols=25  Identities=16%  Similarity=0.032  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.+|.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999998873

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.07  E-value=0.0044  Score=52.41  Aligned_cols=24  Identities=8%  Similarity=0.138  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999873

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

Probab=96.06  E-value=0.0043  Score=50.94  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .|+|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999885

>PRK08116 hypothetical protein; Validated

Probab=96.06  E-value=0.025  Score=50.31  Aligned_cols=46  Identities=17%  Similarity=0.083  Sum_probs=31.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      -+-++|..|+|||.||..+++  .+..+-...++++      ..+++..|....
T Consensus       116 gl~l~G~~GtGKThLa~aia~--~l~~~~~~v~~~~------~~~ll~~i~~~~  161 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIAN--ELIEKGVPVIFVN------FPQLLNRIKSTY  161 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEE------HHHHHHHHHHHH
Confidence            467999999999999999999  4433333456665      345555554443

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.05  E-value=0.0085  Score=53.24  Aligned_cols=52  Identities=12%  Similarity=0.173  Sum_probs=38.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCC-eeEEEECCCCCC-HHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFD-YLAWIPAPYQYD-PDQILDTVTW  235 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~-~~~wV~vs~~~~-~~~ll~~Il~  235 (290)
                      =.-++|+|..|+|||||++.+++  .++.+|. .++++-+.+..+ +.++..++..
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~  122 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTREGNDLYHEMKE  122 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHHHHHHHHHHHh
Confidence            46789999999999999999999  5555554 467777777664 4566666654

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.04  E-value=0.015  Score=52.66  Aligned_cols=76  Identities=11%  Similarity=0.058  Sum_probs=50.8

Q ss_pred             chhHHHHHHHHhcCC-CCcEEEEEEcCCCCChhHHHHHHhcccccc--cc---CCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          165 DDRMEELLDLLIEGP-TQLSVVAILDSIGLDKTAFTAEAYNSSYVK--HY---FDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       165 e~~~~~L~~~L~~~~-~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~--~~---F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      +.-.+.|.+.|...+ ....+|+|.|.-|+||||+.+.+.+..+-.  ..   +..-+|-.-..+--...++..|..++.
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~   81 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE   81 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence            345677888887643 678999999999999999999998843222  01   123455554433335567777777776


Q ss_pred             hc
Q 047336          239 RN  240 (290)
Q Consensus       239 ~~  240 (290)
                      ..
T Consensus        82 ~~   83 (325)
T PF07693_consen   82 KH   83 (325)
T ss_pred             Hh
Confidence            54

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.04  E-value=0.0074  Score=52.60  Aligned_cols=37  Identities=24%  Similarity=0.354  Sum_probs=29.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA  220 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v  220 (290)
                      .-.++|+|..|+|||||+..+..  ...+.|.+..+++-
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence            34678999999999999999887  46778877776654

This is thought to be an ATPase involved in viral DNA packaging [].

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.04  E-value=0.0071  Score=50.39  Aligned_cols=37  Identities=8%  Similarity=0.102  Sum_probs=29.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA  220 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v  220 (290)
                      .++|.|+|+.|+|||||++.+..  ....+|...++-|-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence            46788999999999999999998  44567866666654

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.03  E-value=0.0094  Score=55.36  Aligned_cols=45  Identities=16%  Similarity=0.155  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+...+.|.+.+..+. -...+-++|+.|+||||+|+.+.+
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~   60 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAK   60 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHH
Confidence            468999999999999887653 234567899999999999998876

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.02  E-value=0.021  Score=58.39  Aligned_cols=45  Identities=18%  Similarity=0.221  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcE-EEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLS-VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~-Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++||.+.-++.|.+++..+.  +. .+-++|+.|+||||+|+.+.+.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r--l~HAyLFtGPpGtGKTTLARiLAk~   61 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR--LHHAYLFTGTRGVGKTSLARLFAKG   61 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC--CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999987653  43 3468999999999999998873

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.01  E-value=0.0063  Score=51.46  Aligned_cols=25  Identities=12%  Similarity=0.021  Sum_probs=22.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|.|+|+.|+||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999977

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.00  E-value=0.0062  Score=49.56  Aligned_cols=38  Identities=13%  Similarity=0.069  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccc-cCCeeEEEECCCC
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKH-YFDYLAWIPAPYQ  223 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~~~~wV~vs~~  223 (290)
                      |++|+|+.|+|||||+..+..  ..+. .+...+.-+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~--~l~~~G~~V~viK~~~~~   39 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVK--ALKARGYRVATIKHDHHD   39 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHH--HHHhcCCeEEEEeccccc
Confidence            589999999999999999988  3333 2544444444333

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK06893 DNA replication initiation factor; Validated

Probab=95.99  E-value=0.005  Score=53.37  Aligned_cols=38  Identities=13%  Similarity=0.042  Sum_probs=28.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP  221 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs  221 (290)
                      -+.+-++|+.|+|||+|++.+.+.  .........+++++
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~   76 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLS   76 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHH
Confidence            456889999999999999999983  33333345677664

>PRK05439 pantothenate kinase; Provisional

Probab=95.98  E-value=0.012  Score=53.45  Aligned_cols=26  Identities=12%  Similarity=0.101  Sum_probs=22.9

Q ss_pred             CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          179 PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       179 ~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....-+|+|.|.+|+||||+|+.+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999998865

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=95.98  E-value=0.05  Score=51.25  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...+-|+|..|+|||+|++.+.+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~  159 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNE  159 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            456789999999999999999983

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).

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.98  E-value=0.026  Score=52.45  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++.++|+.|+||||++.++-.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999988876

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.97  E-value=0.008  Score=61.97  Aligned_cols=44  Identities=16%  Similarity=0.288  Sum_probs=36.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|++.+.++++..|.....  .-+-++|.+|+|||+||+.+..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~--~n~lL~G~pGvGKT~l~~~la~  216 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTK--NNPVLIGEPGVGKTAIVEGLAQ  216 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCC--CceEEEcCCCCCHHHHHHHHHH
Confidence            4599999999999999987542  2334799999999999998776

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.95  E-value=0.0057  Score=48.63  Aligned_cols=22  Identities=9%  Similarity=0.286  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999873

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.95  E-value=0.027  Score=51.32  Aligned_cols=60  Identities=17%  Similarity=0.188  Sum_probs=42.2

Q ss_pred             HHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccC----CeeEEEECCCCCCHHHHHHH
Q 047336          173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF----DYLAWIPAPYQYDPDQILDT  232 (290)
Q Consensus       173 ~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F----~~~~wV~vs~~~~~~~ll~~  232 (290)
                      +.|..+=+.-.++-|+|.+|+|||+|+.++.-+......+    ...+||+.-.+|++..+.+.
T Consensus        93 ~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~  156 (317)
T PRK04301         93 ELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM  156 (317)
T ss_pred             HHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence            3344444567899999999999999998776432221111    36899999998888776543

>cd01878 HflX HflX subfamily

Probab=95.95  E-value=0.03  Score=47.15  Aligned_cols=27  Identities=11%  Similarity=0.183  Sum_probs=23.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      +....|+|+|.+|+|||||.+.+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            346789999999999999999888753

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.

>PRK14530 adenylate kinase; Provisional

Probab=95.91  E-value=0.0057  Score=52.38  Aligned_cols=21  Identities=14%  Similarity=0.191  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|+|++|+||||+|+.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999865

>PRK13947 shikimate kinase; Provisional

Probab=95.90  E-value=0.0057  Score=50.14  Aligned_cols=21  Identities=14%  Similarity=0.248  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+||+|+||||+|+.+-+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999876

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

Probab=95.90  E-value=0.0088  Score=60.95  Aligned_cols=47  Identities=15%  Similarity=0.320  Sum_probs=39.7

Q ss_pred             CCcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          158 NRNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+.+|.+..++.|+++|..    +..+-.++.++|++|+||||+|+.+..
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~  371 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK  371 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            35589999999999999873    223456899999999999999999987

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.89  E-value=0.023  Score=49.50  Aligned_cols=23  Identities=9%  Similarity=0.121  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.+-|+|+.|+|||+|++.+.+
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~   67 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACA   67 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999887

>TIGR00763 lon ATP-dependent protease La

Probab=95.88  E-value=0.0092  Score=60.92  Aligned_cols=46  Identities=20%  Similarity=0.355  Sum_probs=37.9

Q ss_pred             CcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..    +..+-.++..+|++|+||||||+.+.+
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~  369 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAK  369 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999987752    233445899999999999999999988

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.88  E-value=0.0063  Score=53.59  Aligned_cols=57  Identities=16%  Similarity=0.109  Sum_probs=36.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEE---------ECCCCCCHHHH--HHHHHHHhh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWI---------PAPYQYDPDQI--LDTVTWLSR  238 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV---------~vs~~~~~~~l--l~~Il~~l~  238 (290)
                      .+...|-++||+|.||||..|.++.+.  ...+.+---|         ..+-+.|+++.  .++.++|-.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl--~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~   84 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL--HAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQ   84 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH--hhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhC
Confidence            456778889999999999999999843  3333322122         22345566664  567777654

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.87  E-value=0.033  Score=50.43  Aligned_cols=60  Identities=15%  Similarity=0.254  Sum_probs=41.9

Q ss_pred             HHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHHH
Q 047336          173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILDT  232 (290)
Q Consensus       173 ~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~~  232 (290)
                      ..|..+=..-.++-|+|.+|+|||||+..+.-+.....    .=..++||+.-.+|+..++.+.
T Consensus        86 ~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~  149 (310)
T TIGR02236        86 ELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQM  149 (310)
T ss_pred             HHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHH
Confidence            33444435678999999999999999988765322211    0127899999998988776543

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.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.86  E-value=0.011  Score=57.88  Aligned_cols=35  Identities=26%  Similarity=0.330  Sum_probs=27.6

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|......+.+|+|.|..|.||||||+.+...
T Consensus        54 a~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         54 ACQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             HHHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            33444444556899999999999999999999763

>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=95.86  E-value=0.0062  Score=48.81  Aligned_cols=20  Identities=15%  Similarity=0.248  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|++|.||||+|+.+-.
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67999999999999999976

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.85  E-value=0.0069  Score=50.65  Aligned_cols=23  Identities=13%  Similarity=0.222  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            36889999999999999999773

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.84  E-value=0.0096  Score=55.37  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=20.5

Q ss_pred             CcEEEEEEcCCCCChhH-HHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTA-FTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTT-La~~vy~  204 (290)
                      +-+||++||+.|+|||| ||+....
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar  226 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAAR  226 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHH
Confidence            37899999999999976 8887655

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

Probab=95.84  E-value=0.0057  Score=49.02  Aligned_cols=22  Identities=9%  Similarity=0.234  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|.+.|++|+||||+|+.+.+.
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            3678999999999999999874

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

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.82  E-value=0.011  Score=55.59  Aligned_cols=45  Identities=11%  Similarity=-0.020  Sum_probs=35.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+. -...+-++|+.|+||||+|+.+-+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~   60 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAK   60 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHH
Confidence            468999999999988887653 123466899999999999987654

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.81  E-value=0.046  Score=52.31  Aligned_cols=49  Identities=18%  Similarity=0.323  Sum_probs=32.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCC--eeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFD--YLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~--~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      ..-+-|+|..|+|||+|++.+.+  .+.....  .+++++      ..+++..+...+.
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~--~l~~~~~~~~v~yv~------~~~f~~~~~~~l~  191 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKN--YIESNFSDLKVSYMS------GDEFARKAVDILQ  191 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEE------HHHHHHHHHHHHH
Confidence            45678999999999999999988  3332221  223333      3466666665554

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.80  E-value=0.0078  Score=51.24  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=23.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++++|+++|..|+|||||..++...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            56999999999999999999998773

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK13695 putative NTPase; Provisional

Probab=95.80  E-value=0.0079  Score=49.64  Aligned_cols=22  Identities=18%  Similarity=0.231  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998874

>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=95.79  E-value=0.008  Score=47.22  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|+|||||.+.+..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g   33 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAG   33 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEEccCCCccccceeeecc
Confidence            35889999999999999999987

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 ....

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=95.79  E-value=0.0092  Score=48.57  Aligned_cols=23  Identities=17%  Similarity=0.042  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..||-|.|..|.||||||+.+..
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~   24 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALER   24 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35888999999999999999998

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=95.79  E-value=0.28  Score=39.48  Aligned_cols=105  Identities=9%  Similarity=0.052  Sum_probs=73.9

Q ss_pred             cHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhh-hcCCchHHHHHHHHHHHH
Q 047336            3 ISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEE-EIDDPDFGTIMDEINCFT   81 (290)
Q Consensus         3 ~~v~~~l~kL~~~~l~~e~~~~~~v~~~v~~L~~eL~~i~~~l~d~~~~~~~~~~~~~~~~-~~~~~~~~~Wl~~lr~~a   81 (290)
                      ++++.+++.|. ..+.........++.-.+.|...++.|...+.+.+            .. ...+..-+.=++++.+..
T Consensus         9 aalG~~~~eLl-k~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~------------~~~~eld~~~~ee~e~L~~~L   75 (147)
T PF05659_consen    9 AALGAVFGELL-KAVIDASKKSLSFKSILKRLESTLESIIPIIKEID------------KLNVELDRPRQEEIERLKELL   75 (147)
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHH------------HHhhhcCCchhHHHHHHHHHH
Confidence            46677777777 77777777778888899999999999999999998            43 223333366778899999


Q ss_pred             HHhHhHHHHHHhhhhccccccccccchhhhhHhHHHHHHHHHHHHHHHH
Q 047336           82 YESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLK  130 (290)
Q Consensus        82 ~d~eD~lD~~~~~~~~~~g~~~~~~~~~~~~~~ia~~i~~i~~~l~~i~  130 (290)
                      .+++++++.|......     .   +  ...++.+++|+++.+.+....
T Consensus        76 ~~g~~LV~k~sk~~r~-----n---~--~kk~~y~~Ki~~le~~l~~f~  114 (147)
T PF05659_consen   76 EKGKELVEKCSKVRRW-----N---L--YKKPRYARKIEELEESLRRFI  114 (147)
T ss_pred             HHHHHHHHHhccccHH-----H---H--HhhHhHHHHHHHHHHHHHHHh
Confidence            9999999998421110     0   0  233455666666666666544

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>PRK13949 shikimate kinase; Provisional

Probab=95.78  E-value=0.0068  Score=50.05  Aligned_cols=21  Identities=14%  Similarity=0.213  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|+.|.|||||++.+.+
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998876

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.77  E-value=0.0074  Score=49.92  Aligned_cols=23  Identities=4%  Similarity=0.101  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++|-+.|++|+||||+|+.+.+.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999999873

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

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

Probab=95.76  E-value=0.0056  Score=46.48  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=17.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |-|+|.+|+|||+||+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999665

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

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=95.75  E-value=0.2  Score=50.60  Aligned_cols=69  Identities=20%  Similarity=0.247  Sum_probs=52.5

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC-CCCHHHHHHHHHHHhhh
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY-QYDPDQILDTVTWLSRR  239 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~-~~~~~~ll~~Il~~l~~  239 (290)
                      .+..|.+.|..+ .+.+.+-|..++|-|||||+-....  ... .=..++|.++.. +-++..+++-++..+..
T Consensus        23 ~R~rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~--~~~-~~~~v~Wlslde~dndp~rF~~yLi~al~~   92 (894)
T COG2909          23 VRPRLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRE--LAA-DGAAVAWLSLDESDNDPARFLSYLIAALQQ   92 (894)
T ss_pred             ccHHHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHH--hcC-cccceeEeecCCccCCHHHHHHHHHHHHHH
Confidence            456778877765 3588999999999999999988864  111 123589999975 45788898888888874

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.74  E-value=0.027  Score=55.91  Aligned_cols=75  Identities=12%  Similarity=0.134  Sum_probs=51.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc-cCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH-YFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      ++++|.++..+.+...+..+.    -+-++|++|+||||||+.+.+  .+.. .|...+.+.-+. .+...+++.+..++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~----~~ll~G~pG~GKT~la~~la~--~l~~~~~~~~~~~~n~~-~~~~~~~~~v~~~~   90 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR----NVLLIGEPGVGKSMLAKAMAE--LLPDEELEDILVYPNPE-DPNMPRIVEVPAGE   90 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC----CEEEECCCCCCHHHHHHHHHH--HcCchhheeEEEEeCCC-CCchHHHHHHHHhh
Confidence            568899988887777666432    344899999999999999987  4433 344444444332 24556788888776


Q ss_pred             hhc
Q 047336          238 RRN  240 (290)
Q Consensus       238 ~~~  240 (290)
                      ...
T Consensus        91 g~~   93 (608)
T TIGR00764        91 GRE   93 (608)
T ss_pred             chH
Confidence            643

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

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.73  E-value=0.011  Score=56.55  Aligned_cols=44  Identities=18%  Similarity=0.249  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCc-EEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQL-SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~-~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+.....|.+++..+.  + ..+-++|+.|+||||+|+.+.+
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r--i~ha~Lf~GP~GtGKTTlAriLAk   62 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK--IGHAYIFFGPRGVGKTTIARILAK   62 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999888654  3 3467899999999999999876

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.73  E-value=0.016  Score=55.97  Aligned_cols=47  Identities=23%  Similarity=0.237  Sum_probs=36.7

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|.+..+++|.+.+..           +-...+-+-++|++|+|||++|+.+++.
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            4578899999998887642           1123455788999999999999999984

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.

>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=95.72  E-value=0.02  Score=46.02  Aligned_cols=18  Identities=22%  Similarity=0.161  Sum_probs=17.0

Q ss_pred             EEcCCCCChhHHHHHHhc
Q 047336          187 ILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       187 IvGmgGiGKTTLa~~vy~  204 (290)
                      |+|++|+||||+|+.+..
T Consensus         1 i~G~PgsGK~t~~~~la~   18 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAK   18 (151)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHH
Confidence            689999999999999987

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 ....

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

Probab=95.72  E-value=0.012  Score=55.20  Aligned_cols=47  Identities=19%  Similarity=0.185  Sum_probs=36.9

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|.+..+++|.+.+.-           +-...+-+-++|++|+|||+||+.+.+.
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            4688999999888886641           1123566889999999999999999883

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.70  E-value=0.037  Score=52.50  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++.++|++|+||||++..+-.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~  243 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAA  243 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999997776644

>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=95.69  E-value=0.0096  Score=50.41  Aligned_cols=54  Identities=24%  Similarity=0.171  Sum_probs=30.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC--HHHHHHHHHHHhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD--PDQILDTVTWLSR  238 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~--~~~ll~~Il~~l~  238 (290)
                      ++||.+||+.|+||||.+-++-...  +.+=..++.|+. ..|.  ..+=|+...+.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~--~~~~~~v~lis~-D~~R~ga~eQL~~~a~~l~   56 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL--KLKGKKVALISA-DTYRIGAVEQLKTYAEILG   56 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH--HHTT--EEEEEE-STSSTHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH--hhccccceeecC-CCCCccHHHHHHHHHHHhc
Confidence            4799999999999998555444422  222223455553 3333  3334555555554

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 ....

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

Probab=95.69  E-value=0.013  Score=59.51  Aligned_cols=44  Identities=16%  Similarity=0.203  Sum_probs=36.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++||+.+.++++..|..... . -+-++|.+|+|||+||+.+..
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~-~-n~LLvGppGvGKT~lae~la~  229 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRK-N-NPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCC-C-CeEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999887432 2 234799999999999999886

>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=95.69  E-value=0.0077  Score=47.24  Aligned_cols=28  Identities=18%  Similarity=0.160  Sum_probs=18.6

Q ss_pred             EEEEcCCCCChhHHHHHHhccccccccCCe
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSYVKHYFDY  214 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~v~~~F~~  214 (290)
                      +-++|.+|+||||||+.+-.  .+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCceeE
Confidence            45899999999999999988  55666743

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.

>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=95.68  E-value=0.14  Score=44.13  Aligned_cols=71  Identities=13%  Similarity=0.170  Sum_probs=42.1

Q ss_pred             cccc-chhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhccccccccC-Ce-eEEEECCCCCCHHHHHHHHHHH
Q 047336          161 TVGL-DDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF-DY-LAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       161 ~vG~-e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F-~~-~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      ++|- ....-...+.+..+ ......+-|+|..|+|||.|.+.+++  .+.+.. +. +++++      ..++...+...
T Consensus        11 v~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~--~~~~~~~~~~v~y~~------~~~f~~~~~~~   82 (219)
T PF00308_consen   11 VVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIAN--EAQKQHPGKRVVYLS------AEEFIREFADA   82 (219)
T ss_dssp             --TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHH--HHHHHCTTS-EEEEE------HHHHHHHHHHH
T ss_pred             CcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHH--HHHhccccccceeec------HHHHHHHHHHH
Confidence            4563 33334444445443 33455678999999999999999999  443322 22 44444      45666666655


Q ss_pred             hhh
Q 047336          237 SRR  239 (290)
Q Consensus       237 l~~  239 (290)
                      +..
T Consensus        83 ~~~   85 (219)
T PF00308_consen   83 LRD   85 (219)
T ss_dssp             HHT
T ss_pred             HHc
Confidence            543

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.

>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=95.68  E-value=0.0079  Score=49.65  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.0

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|.|.+|+|||||++.+.+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            678999999999999998874

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.68  E-value=0.0066  Score=49.42  Aligned_cols=21  Identities=10%  Similarity=0.229  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|+.|+||||+|+.+-+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999998873

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=95.66  E-value=0.048  Score=56.22  Aligned_cols=79  Identities=14%  Similarity=0.079  Sum_probs=53.6

Q ss_pred             cccccchhHHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE---CCC--CC-CHHHHHHH
Q 047336          160 NTVGLDDRMEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP---APY--QY-DPDQILDT  232 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~---vs~--~~-~~~~ll~~  232 (290)
                      .++||+.+.+.|...+.. ....-.++.+.|..|||||+|++.|.+  .+...+...+--.   ...  ++ .....+++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~--~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHK--PITQQRGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHH--HHhccceeeeHhhcccccCCCchHHHHHHHHH
Confidence            378999999999988875 233466999999999999999999998  4443322211111   111  12 34567788


Q ss_pred             HHHHhhhc
Q 047336          233 VTWLSRRN  240 (290)
Q Consensus       233 Il~~l~~~  240 (290)
                      ++.++...
T Consensus        79 l~~~ll~~   86 (849)
T COG3899          79 LMGQLLSE   86 (849)
T ss_pred             HHHHHhhc
Confidence            88887433

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.66  E-value=0.028  Score=47.08  Aligned_cols=23  Identities=17%  Similarity=-0.002  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..|+|.|..|+||||+++.+.+.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~   26 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKL   26 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999874

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.65  E-value=0.0081  Score=51.09  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .-|.|+|++|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            568899999999999999888754

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=95.65  E-value=0.082  Score=50.56  Aligned_cols=30  Identities=23%  Similarity=0.274  Sum_probs=24.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      ...-+-|+|..|+|||+|++.+.+  .+...+
T Consensus       147 ~~~~l~l~G~~G~GKThL~~ai~~--~~~~~~  176 (450)
T PRK00149        147 AYNPLFIYGGVGLGKTHLLHAIGN--YILEKN  176 (450)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHH--HHHHhC
Confidence            345678999999999999999999  444443

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.64  E-value=0.0092  Score=47.86  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhccc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .|+++|.+|+|||||++.+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887643

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

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.63  E-value=0.013  Score=57.18  Aligned_cols=45  Identities=13%  Similarity=0.131  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+.+..+. -...+-++|+.|+||||+|+.+.+
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk   60 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAK   60 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999887653 234466899999999999998865

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.63  E-value=0.0097  Score=50.58  Aligned_cols=23  Identities=13%  Similarity=0.268  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+++|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998765

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.63  E-value=0.019  Score=51.93  Aligned_cols=36  Identities=19%  Similarity=0.189  Sum_probs=27.3

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+.+-+........+|+|+|.+|+|||||+..+..
T Consensus        21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHH
Confidence            344444443345689999999999999999988766

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK08727 hypothetical protein; Validated

Probab=95.62  E-value=0.028  Score=48.81  Aligned_cols=39  Identities=13%  Similarity=0.066  Sum_probs=28.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      ..-+.|+|..|+|||+|++.+.+  ..........++++.+
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~--~~~~~~~~~~y~~~~~   79 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCA--AAEQAGRSSAYLPLQA   79 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEEeHHH
Confidence            34589999999999999999988  3444434556666543

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.62  E-value=0.0079  Score=48.50  Aligned_cols=21  Identities=14%  Similarity=0.137  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||.|+|.+|+||||||+.+-.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.61  E-value=0.05  Score=50.62  Aligned_cols=24  Identities=13%  Similarity=0.210  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...++.++|+.|+||||++..+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~  228 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGW  228 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998887765

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.60  E-value=0.026  Score=50.54  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=23.5

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..++.|+|.+|.|||||+..+.+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~  126 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLM  126 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999999988

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.60  E-value=0.011  Score=48.40  Aligned_cols=23  Identities=30%  Similarity=0.258  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|+.|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999999988776

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.58  E-value=0.009  Score=49.78  Aligned_cols=22  Identities=18%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|-|+|.+|.||||+|+.+-+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999884

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.58  E-value=0.016  Score=50.06  Aligned_cols=21  Identities=29%  Similarity=0.284  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|+|.|-||+||||+|-.+..
T Consensus         2 kIaI~GKGG~GKTtiaalll~   22 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLK   22 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHH
Confidence            689999999999999888433

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.57  E-value=0.025  Score=56.23  Aligned_cols=75  Identities=15%  Similarity=0.136  Sum_probs=55.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      ++++|.++.++.|...+..+    ..+-++|.+|+||||||+.+.+.. -..+|+..+|..-+. -+...+++.+..++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np~-~~~~~~~~~v~~~~G  104 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNPE-DPNNPKIRTVPAGKG  104 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCCC-cchHHHHHHHHHhcC
Confidence            45899988888887766644    257789999999999999988732 223467788877643 366778888876655


Q ss_pred             h
Q 047336          239 R  239 (290)
Q Consensus       239 ~  239 (290)
                      .
T Consensus       105 ~  105 (637)
T PRK13765        105 K  105 (637)
T ss_pred             H
Confidence            4

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.57  E-value=0.01  Score=49.09  Aligned_cols=23  Identities=9%  Similarity=0.190  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|+|+.|.|||||++.+-+
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHH
Confidence            34689999999999999999976

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.56  E-value=0.0094  Score=48.48  Aligned_cols=42  Identities=19%  Similarity=0.133  Sum_probs=30.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      +|.|-|++|+||||+|+.+-++...+.         +    +.-.++++|.+..+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~---------v----saG~iFR~~A~e~g   43 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKL---------V----SAGTIFREMARERG   43 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCce---------e----eccHHHHHHHHHcC
Confidence            789999999999999999987433221         1    23466777776654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.56  E-value=0.03  Score=54.15  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|+|.+|+||||++.++..
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999987765

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.56  E-value=0.02  Score=52.41  Aligned_cols=36  Identities=25%  Similarity=0.295  Sum_probs=27.9

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|.+.+.....+..+|+|.|.+|+|||||+..+..
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            455555544345688999999999999999998765

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.56  E-value=0.016  Score=48.21  Aligned_cols=25  Identities=8%  Similarity=0.189  Sum_probs=22.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      -.++.|.|+.|+||+||++.++++.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3578899999999999999999954

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.55  E-value=0.017  Score=50.09  Aligned_cols=23  Identities=13%  Similarity=0.125  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|+|||||++.+--
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            46899999999999999998854

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.54  E-value=0.022  Score=49.95  Aligned_cols=66  Identities=14%  Similarity=0.113  Sum_probs=36.2

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHH
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDT  232 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~  232 (290)
                      ...+|++.+.....+..+|+|.|++|.||+||.-.+-....-+.+==.++-|.-|.+|+=-.||-+
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGD   79 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGD   79 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccccc
Confidence            456677777765556889999999999999999877662221111111233333556655554443

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK06761 hypothetical protein; Provisional

Probab=95.54  E-value=0.022  Score=50.90  Aligned_cols=24  Identities=13%  Similarity=0.093  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .+|.|.|++|+||||+++.+.+..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999999843

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

Probab=95.53  E-value=0.017  Score=54.92  Aligned_cols=52  Identities=19%  Similarity=0.238  Sum_probs=38.0

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      .++.|.+..+++|.+.+.-           +-....-+-++|++|+|||+||+.+.+  .....|
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~--el~~~f  245 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVAN--ETSATF  245 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHH--hhCCCE
Confidence            3577888888888887642           112345577899999999999999998  444444

>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=95.53  E-value=0.012  Score=44.66  Aligned_cols=22  Identities=27%  Similarity=0.238  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -..++|+|+.|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4678999999999999999976

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

>TIGR01287 nifH nitrogenase iron protein

Probab=95.52  E-value=0.0088  Score=53.15  Aligned_cols=21  Identities=24%  Similarity=0.260  Sum_probs=17.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 047336          183 SVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      +.|+|+|-||+||||++..+-
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA   21 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIA   21 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHH
Confidence            468999999999999776554

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.52  E-value=0.022  Score=51.03  Aligned_cols=45  Identities=13%  Similarity=0.182  Sum_probs=30.4

Q ss_pred             cccccchhHHHHHHHHh---c-------C-C--CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLI---E-------G-P--TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~---~-------~-~--~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|.++.+++|.++..   .       + .  ....-+-++|.+|+||||+|+.+..
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~   80 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQ   80 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHH
Confidence            58998888887765432   1       1 0  1122466899999999999966654

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.50  E-value=0.018  Score=57.09  Aligned_cols=45  Identities=18%  Similarity=0.152  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+...+.|.+++..+.. ...+-++|+.|+||||+|+.+-+
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl-~HAyLF~GPpGvGKTTlAriLAK   59 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRL-HHAYLFTGTRGVGKTTIARILAK   59 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-CeEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999986542 34667899999999999987754

>PRK10536 hypothetical protein; Provisional

Probab=95.49  E-value=0.025  Score=49.80  Aligned_cols=43  Identities=12%  Similarity=0.113  Sum_probs=35.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+.++......+..+|...    .++.+.|.+|+|||+||..+.-+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHHHHH
Confidence            44677888888899888753    38889999999999999887663

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=95.49  E-value=0.018  Score=56.61  Aligned_cols=45  Identities=11%  Similarity=0.157  Sum_probs=36.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+.. ...+-++|+.|+||||+|+.+-+
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl-~hA~Lf~GP~GvGKTTlA~~lAk   60 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKL-THAYIFSGPRGIGKTSIAKIFAK   60 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-CceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999998876531 24566899999999999988754

>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=95.49  E-value=0.012  Score=44.96  Aligned_cols=21  Identities=19%  Similarity=0.256  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|+|+.|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

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 ....

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=95.49  E-value=0.011  Score=52.73  Aligned_cols=22  Identities=18%  Similarity=0.247  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|+|+|..|+|||||+..+..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~   23 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVD   23 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999988

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

Probab=95.49  E-value=0.019  Score=54.00  Aligned_cols=77  Identities=14%  Similarity=0.224  Sum_probs=49.0

Q ss_pred             CcccccchhHHHHHHHHhcC------------CCCcEEEEEEcCCCCChhHHHHHHhccccccccC---CeeEEEECCC-
Q 047336          159 RNTVGLDDRMEELLDLLIEG------------PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF---DYLAWIPAPY-  222 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~------------~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F---~~~~wV~vs~-  222 (290)
                      ..++|.+..++.+..++...            +....-|-++|+.|+||||||+.+-.  .....|   +..-|..... 
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk--~l~~~fi~vD~t~f~e~Gyv   92 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAK--LANAPFIKVEATKFTEVGYV   92 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHH--HhCChheeecchhhccCCcc
Confidence            45899999999999888531            11246788999999999999998876  333222   3222222211 


Q ss_pred             CCCHHHHHHHHHHHh
Q 047336          223 QYDPDQILDTVTWLS  237 (290)
Q Consensus       223 ~~~~~~ll~~Il~~l  237 (290)
                      ..+...+++.++...
T Consensus        93 G~d~e~~ir~L~~~A  107 (443)
T PRK05201         93 GRDVESIIRDLVEIA  107 (443)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            225556666655544

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.46  E-value=0.032  Score=49.77  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|.++|++|+||||++.++-.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~   94 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLAN   94 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHH
Confidence            3478999999999999998776654

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.46  E-value=0.04  Score=50.71  Aligned_cols=66  Identities=14%  Similarity=0.101  Sum_probs=45.1

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      |-+.|..+=..-.++-|.|.+|+|||+|+..+.-......    .=..++||+.-.+|++.++. +|++.+
T Consensus       112 LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~  181 (342)
T PLN03186        112 LDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERF  181 (342)
T ss_pred             HHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHc
Confidence            3344444445678888999999999999987764322211    11368999999999988764 445544

>PRK14527 adenylate kinase; Provisional

Probab=95.45  E-value=0.013  Score=49.24  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|.|+|++|+||||+|+.+.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

>cd04163 Era Era subfamily

Probab=95.45  E-value=0.014  Score=46.48  Aligned_cols=24  Identities=17%  Similarity=0.191  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+|+++|..|+|||||+..+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998664

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.

>PRK12338 hypothetical protein; Provisional

Probab=95.44  E-value=0.057  Score=49.10  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+|.|.|.+|+||||+|+.+-..
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~   27 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELART   27 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999988763

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.44  E-value=0.019  Score=55.00  Aligned_cols=41  Identities=15%  Similarity=0.108  Sum_probs=34.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|+++..+.+...+..+.    -+-+.|++|+|||+||+.+..
T Consensus        21 ~i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHH
Confidence            48999999999888887553    355889999999999999987

>PRK13976 thymidylate kinase; Provisional

Probab=95.43  E-value=0.049  Score=46.57  Aligned_cols=50  Identities=8%  Similarity=0.055  Sum_probs=30.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCC--eeEEEECCCCCCHHHHHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFD--YLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~--~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      .|+|-|..|+||||+++.+++.  .+.+..  ...+..-+......+.+++++.
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~~--L~~~~g~~~v~~~~eP~~~~~g~~ir~~l~   53 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAEY--LSDIYGENNVVLTREPGGTSFNELVRGLLL   53 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH--HHHhcCCcceEEeeCCCCCHHHHHHHHHHc
Confidence            5889999999999999999983  333211  2233333333334455555543

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.43  E-value=0.026  Score=52.27  Aligned_cols=71  Identities=11%  Similarity=-0.044  Sum_probs=48.3

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc-cCCe-eEEEECCCCC-CHHHHHHHHHHHhhhc
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH-YFDY-LAWIPAPYQY-DPDQILDTVTWLSRRN  240 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~~-~~wV~vs~~~-~~~~ll~~Il~~l~~~  240 (290)
                      -..++++.+.--. +-.-+.|+|..|+|||||++.+.+.  +.. +=+. ++|+.+.+.. ++.++++.+...+...
T Consensus       119 ~~~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~--i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        119 LSMRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAA--VAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hhHhhhhheeecC-CCceEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            3345677665311 2345689999999999999998773  222 2234 5788887655 6788999988766643

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.42  E-value=0.0092  Score=48.64  Aligned_cols=21  Identities=14%  Similarity=0.110  Sum_probs=17.3

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999873

>PRK04182 cytidylate kinase; Provisional

Probab=95.42  E-value=0.012  Score=48.36  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|.|.|+.|+||||+|+.+-+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~   23 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999999873

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.42  E-value=0.14  Score=48.01  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.++|+.|+||||.+.++-.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~  196 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAA  196 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999998877755

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.41  E-value=0.012  Score=51.18  Aligned_cols=23  Identities=26%  Similarity=0.199  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =..++|+|+.|+|||||.+.|--
T Consensus        29 GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999854

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=95.41  E-value=0.013  Score=47.83  Aligned_cols=22  Identities=18%  Similarity=0.249  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|..|+|||||+..+..
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~   23 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIP   23 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.41  E-value=0.012  Score=51.72  Aligned_cols=24  Identities=17%  Similarity=0.152  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +=.+++|+|+.|+|||||.+.++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            357899999999999999999987

>PRK06620 hypothetical protein; Validated

Probab=95.41  E-value=0.032  Score=47.89  Aligned_cols=24  Identities=25%  Similarity=0.007  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      +.+-|+|+.|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568899999999999999987743

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.40  E-value=0.046  Score=49.82  Aligned_cols=59  Identities=17%  Similarity=0.133  Sum_probs=41.0

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHH
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~l  229 (290)
                      |-.+|..+=..-.++-|.|.+|+|||||+..+.-......    .-..++||+-...|+..++
T Consensus        85 lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl  147 (316)
T TIGR02239        85 LDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL  147 (316)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH
Confidence            3344445545688999999999999999988764222211    1235799998888887764

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).

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.40  E-value=0.018  Score=48.75  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|+|+.|+||||++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999987655

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.39  E-value=0.047  Score=49.69  Aligned_cols=64  Identities=16%  Similarity=0.199  Sum_probs=43.5

Q ss_pred             HHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       173 ~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      ++|..+=+.-+++=|+|.+|+|||+|+..+.-......    .=..++||+.-.+|++.++.+ +++.+
T Consensus        87 ~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~  154 (313)
T TIGR02238        87 GILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERF  154 (313)
T ss_pred             HHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHc
Confidence            34444445678999999999999999977543222211    113689999999999888754 44444

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.

>PRK08356 hypothetical protein; Provisional

Probab=95.38  E-value=0.014  Score=49.26  Aligned_cols=21  Identities=19%  Similarity=0.199  Sum_probs=19.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ..+|.|.|++|+||||+|+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHH
Confidence            367999999999999999999

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

Probab=95.37  E-value=0.033  Score=43.57  Aligned_cols=46  Identities=17%  Similarity=0.185  Sum_probs=35.3

Q ss_pred             CcccccchhHHHHHHHHhc-----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|..-..+.+++.+.+     .+.+.-|++..|..|+|||.+++.+-+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~   75 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAE   75 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHH
Confidence            4578887777777777653     356789999999999999996665543

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

>PLN02796 D-glycerate 3-kinase

Probab=95.37  E-value=0.014  Score=53.49  Aligned_cols=25  Identities=20%  Similarity=0.127  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...-+|+|.|..|+|||||++.+..
T Consensus        98 ~~pliIGI~G~sGSGKSTLa~~L~~  122 (347)
T PLN02796         98 IPPLVIGISAPQGCGKTTLVFALVY  122 (347)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3578999999999999999999987

>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=95.35  E-value=0.013  Score=50.05  Aligned_cols=23  Identities=22%  Similarity=0.133  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        30 G~~~~l~G~nGsGKSTLl~~i~G   52 (218)
T cd03255          30 GEFVAIVGPSGSGKSTLLNILGG   52 (218)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.35  E-value=0.013  Score=47.70  Aligned_cols=21  Identities=19%  Similarity=0.202  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|.|.|+.|+||||+|+.+-+
T Consensus         2 iI~i~G~~GSGKstia~~la~   22 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAE   22 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999976

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=95.33  E-value=0.013  Score=52.32  Aligned_cols=20  Identities=10%  Similarity=0.145  Sum_probs=17.4

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      .+|+|+|-||+||||+|-.+
T Consensus         2 ~~i~~~gKGGVGKTT~a~nL   21 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNI   21 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHH
Confidence            57999999999999977664

>PLN02200 adenylate kinase family protein

Probab=95.32  E-value=0.016  Score=50.50  Aligned_cols=24  Identities=13%  Similarity=0.073  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.|.|++|+||||+|+.+-.
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998876

>cd04155 Arl3 Arl3 subfamily

Probab=95.32  E-value=0.013  Score=47.75  Aligned_cols=25  Identities=16%  Similarity=0.078  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +...|+|+|..|+|||||.+.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            3556899999999999999999884

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.32  E-value=0.02  Score=55.18  Aligned_cols=44  Identities=16%  Similarity=0.197  Sum_probs=35.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcE-EEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLS-VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~-Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||.+.-.+.|.+.+..+.  +. -+-++|+.|+||||+|+.+-.
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r--i~ha~Lf~Gp~G~GKTT~ArilAk   57 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK--IPQSILLVGASGVGKTTCARIISL   57 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC--CCceEEEECCCCccHHHHHHHHHH
Confidence            468999999998888887654  33 577899999999999987743

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.32  E-value=0.013  Score=48.64  Aligned_cols=23  Identities=9%  Similarity=0.076  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|+|..|.|||||++.+..-
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~   26 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAAL   26 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999999873

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.32  E-value=0.014  Score=49.66  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 G~~~~l~G~nGsGKSTLl~~l~G   49 (211)
T cd03225          27 GEFVLIVGPNGSGKSTLLRLLNG   49 (211)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

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.

>cd01862 Rab7 Rab7 subfamily

Probab=95.31  E-value=0.014  Score=47.37  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|+|+|.+|+|||||++.+.++
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999888764

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>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=95.31  E-value=0.025  Score=51.78  Aligned_cols=47  Identities=13%  Similarity=0.324  Sum_probs=41.6

Q ss_pred             CCcccccchhHHHHHHHHhcC----CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          158 NRNTVGLDDRMEELLDLLIEG----PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~----~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+++|+++..+++++.+...    +..-+|+-.+|+.|.||||||..+-+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999752    56789999999999999999999887

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

>PRK01184 hypothetical protein; Provisional

Probab=95.30  E-value=0.014  Score=48.47  Aligned_cols=19  Identities=16%  Similarity=0.351  Sum_probs=17.1

Q ss_pred             EEEEEEcCCCCChhHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAE  201 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~  201 (290)
                      .+|+|+|++|+||||+++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~~   20 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSKI   20 (184)
T ss_pred             cEEEEECCCCCCHHHHHHH
Confidence            4899999999999999873

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=95.30  E-value=0.012  Score=50.13  Aligned_cols=20  Identities=20%  Similarity=0.287  Sum_probs=17.0

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ++|+|.|-||+||||++-.+
T Consensus         1 ~~iav~gKGGvGKTt~~~nL   20 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNL   20 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHH
Confidence            47999999999999976654

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PLN02674 adenylate kinase

Probab=95.30  E-value=0.11  Score=45.39  Aligned_cols=23  Identities=9%  Similarity=0.027  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|-|.|++|+||||+|+.+-.
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~   53 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKD   53 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45577999999999999998876

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.29  E-value=0.016  Score=49.15  Aligned_cols=24  Identities=17%  Similarity=0.088  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999999999873

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=95.29  E-value=0.015  Score=45.66  Aligned_cols=23  Identities=9%  Similarity=0.203  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhccc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      -|+++|..|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999888755

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.28  E-value=0.015  Score=46.81  Aligned_cols=21  Identities=14%  Similarity=0.248  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988764

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.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.27  E-value=0.013  Score=52.10  Aligned_cols=21  Identities=24%  Similarity=0.259  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 047336          183 SVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ++|+|+|-||+||||++-.+-
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA   22 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLT   22 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHH
Confidence            579999999999999877653

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.26  E-value=0.014  Score=49.75  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        29 GEMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999987

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.26  E-value=0.015  Score=46.92  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999888653

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

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.26  E-value=0.05  Score=50.08  Aligned_cols=62  Identities=15%  Similarity=0.138  Sum_probs=43.2

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      |..+=..-+++=|.|.+|+|||+|+..+.=+.....    .=...+||+.-.+|++.++.+ |.+.+
T Consensus       119 LgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~  184 (344)
T PLN03187        119 LGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERF  184 (344)
T ss_pred             cCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHc
Confidence            444445678888999999999999987753222211    124689999999999888765 44444

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

Probab=95.26  E-value=0.081  Score=46.67  Aligned_cols=50  Identities=14%  Similarity=0.092  Sum_probs=33.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      ...-+.++|.+|+|||.||..+-+.  +...=-.+.+++      ..++.+++-....
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~--l~~~g~sv~f~~------~~el~~~Lk~~~~  153 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNE--LLKAGISVLFIT------APDLLSKLKAAFD  153 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHh
Confidence            4556789999999999999999984  333212345555      4456666554443

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.24  E-value=0.023  Score=47.63  Aligned_cols=25  Identities=12%  Similarity=0.101  Sum_probs=22.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +..+|.|+|+.|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4678999999999999999999873

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.24  E-value=0.015  Score=48.60  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G   40 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNG   40 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999876

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.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=95.24  E-value=0.014  Score=51.56  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|+|.|-||+||||++-.+-.
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~   23 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSA   23 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHH
Confidence            5788999999999998876543

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PRK09087 hypothetical protein; Validated

Probab=95.23  E-value=0.015  Score=50.42  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -+.+.|+|..|+|||+|++.+++.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            466899999999999999998864

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.23  E-value=0.015  Score=54.28  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|+++|.+|+||||++..+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            457999999999999999988865

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=95.23  E-value=0.016  Score=49.39  Aligned_cols=24  Identities=17%  Similarity=0.238  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .. .+++|+|..|.|||||++.+..
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G   45 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAG   45 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhC
Confidence            45 8999999999999999999976

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.22  E-value=0.021  Score=55.37  Aligned_cols=45  Identities=13%  Similarity=0.110  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||-+.-++.|.+++..+. -...+-++|+.|+||||+|+.+-+
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk   60 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAK   60 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998653 122456889999999999987765

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.22  E-value=0.024  Score=56.33  Aligned_cols=48  Identities=13%  Similarity=0.088  Sum_probs=39.7

Q ss_pred             CCcccccchhHHHHHHHHhcCC---CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          158 NRNTVGLDDRMEELLDLLIEGP---TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~---~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|-+...++|..||....   ..-.++.++|+.|+||||+++.+.+.
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999997632   23467999999999999999999873

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

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=95.22  E-value=0.016  Score=48.04  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999975

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.

>PLN02348 phosphoribulokinase

Probab=95.21  E-value=0.026  Score=52.62  Aligned_cols=26  Identities=15%  Similarity=0.226  Sum_probs=23.5

Q ss_pred             CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          179 PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       179 ~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .....+|+|.|..|+||||||+.+.+
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~   71 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTS   71 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999999887

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.21  E-value=0.013  Score=48.76  Aligned_cols=21  Identities=14%  Similarity=0.283  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|+.|+||||+++.+-+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.21  E-value=0.041  Score=46.29  Aligned_cols=23  Identities=13%  Similarity=-0.020  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999873

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=95.20  E-value=0.015  Score=47.60  Aligned_cols=23  Identities=13%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|++|+|+-|+|||||...+-.
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~   24 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVR   24 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHH
Confidence            57999999999999999999865

>PRK13946 shikimate kinase; Provisional

Probab=95.20  E-value=0.014  Score=48.65  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.|.++||.|+||||+++.+-+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~   32 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLAT   32 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999987

>cd04113 Rab4 Rab4 subfamily

Probab=95.19  E-value=0.016  Score=46.56  Aligned_cols=21  Identities=19%  Similarity=0.254  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|.+|+|||||++.+.+.
T Consensus         3 i~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988654

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

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.19  E-value=0.018  Score=46.13  Aligned_cols=53  Identities=13%  Similarity=0.201  Sum_probs=33.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcccc-ccc----cCCeeEEEECCCCC-CHHHHHHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSY-VKH----YFDYLAWIPAPYQY-DPDQILDTVTWL  236 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~-v~~----~F~~~~wV~vs~~~-~~~~ll~~Il~~  236 (290)
                      +.|-++|..|+|||||++.+...+. .++    .|...+ |..+..| .-..+-+.++..
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~~~KTq~i~~~~~~-IDTPGEyiE~~~~y~aLi~t   60 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIRYKKTQAIEYYDNT-IDTPGEYIENPRFYHALIVT   60 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCCcCccceeEecccE-EECChhheeCHHHHHHHHHH
Confidence            3577899999999999999987542 111    133333 6666655 334555555543

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.18  E-value=0.017  Score=46.42  Aligned_cols=22  Identities=9%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999997643

Rab GTPases are implicated in vesicle trafficking.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.17  E-value=0.043  Score=48.59  Aligned_cols=54  Identities=15%  Similarity=0.184  Sum_probs=33.2

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHH
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll  230 (290)
                      .+.+..++..+   .++ -+.|.+|+|||+||+.+.+  ....   ....++.+...+..+++
T Consensus        11 ~~~~l~~l~~g---~~v-LL~G~~GtGKT~lA~~la~--~lg~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        11 TSRALRYLKSG---YPV-HLRGPAGTGKTTLAMHVAR--KRDR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHhcC---CeE-EEEcCCCCCHHHHHHHHHH--HhCC---CEEEEeCCccCCHHHHh
Confidence            34444444432   333 4899999999999999986  2221   24555666665555554

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).

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.17  E-value=0.067  Score=47.75  Aligned_cols=55  Identities=16%  Similarity=0.129  Sum_probs=43.4

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHH
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      |..+=+.-+++=|+|+.|.||||||-+++-  .++..-..++||.--..|++..+.+
T Consensus        53 LGGGl~~g~ItEiyG~~gsGKT~lal~~~~--~aq~~g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          53 LGGGLPRGRITEIYGPESSGKTTLALQLVA--NAQKPGGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             hcCCcccceEEEEecCCCcchhhHHHHHHH--HhhcCCCeEEEEeCCCCCCHHHHHH
Confidence            334446678999999999999999998877  3444455899999999999877644

>PRK13768 GTPase; Provisional

Probab=95.16  E-value=0.016  Score=50.99  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=19.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++.|+|.||+||||++..+..
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~   24 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSD   24 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHH
Confidence            35789999999999998877665

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.16  E-value=0.015  Score=42.09  Aligned_cols=21  Identities=24%  Similarity=0.336  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++.+.|.+|+||||++..+-.
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~   21 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAA   21 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            477899999999999988876

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd00154 Rab Rab family

Probab=95.15  E-value=0.017  Score=45.63  Aligned_cols=22  Identities=14%  Similarity=0.336  Sum_probs=19.5

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            6799999999999999987754

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>cd00879 Sar1 Sar1 subfamily

Probab=95.14  E-value=0.033  Score=46.18  Aligned_cols=24  Identities=13%  Similarity=0.011  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|.|+|.+|+|||||++.+.++
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            445599999999999999998763

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.13  E-value=0.018  Score=49.23  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +-.|++|+|+.|+|||||.+.+..
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC
Confidence            356899999999999999999986

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.13  E-value=0.016  Score=45.86  Aligned_cols=21  Identities=10%  Similarity=0.109  Sum_probs=19.4

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999875

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.

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=95.12  E-value=0.026  Score=52.60  Aligned_cols=24  Identities=17%  Similarity=0.092  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.-||+|+|..|+|||||+..+..
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~   27 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVR   27 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH
Confidence            467999999999999999999987

>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=95.12  E-value=0.017  Score=50.07  Aligned_cols=23  Identities=17%  Similarity=0.209  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G   48 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVG   48 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999986

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.12  E-value=0.028  Score=52.14  Aligned_cols=45  Identities=16%  Similarity=0.166  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+...+.+.+++..+. -...+-++|+.|+||||+|+.+-+
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~   61 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILAR   61 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999988653 235777899999999999998866

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.10  E-value=0.033  Score=46.53  Aligned_cols=35  Identities=20%  Similarity=0.136  Sum_probs=25.1

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..++......   .-..+.|+|..|.|||||++.+..
T Consensus        13 ~~~~~l~~~v~---~g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          13 LQAAYLWLAVE---ARKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             HHHHHHHHHHh---CCCEEEEECCCCCCHHHHHHHHHh
Confidence            33444444442   245789999999999999998875

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.10  E-value=0.017  Score=49.36  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (220)
T cd03263          28 GEIFGLLGHNGAGKTTTLKMLTG   50 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999986

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=95.10  E-value=0.071  Score=46.37  Aligned_cols=37  Identities=11%  Similarity=0.173  Sum_probs=26.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA  220 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v  220 (290)
                      ...+-|+|..|+|||.|++.+.+.  ....-..+++++.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~--~~~~~~~v~y~~~   81 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLR--FEQRGEPAVYLPL   81 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCcEEEeeH
Confidence            467889999999999999999873  2222233556654

>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=95.10  E-value=0.017  Score=49.42  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999873

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.09  E-value=0.019  Score=52.30  Aligned_cols=24  Identities=17%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+++|++|+||||++..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999999888765

>cd00876 Ras Ras family

Probab=95.09  E-value=0.018  Score=45.88  Aligned_cols=21  Identities=29%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|+.|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999988653

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

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

Probab=95.09  E-value=0.029  Score=48.88  Aligned_cols=49  Identities=16%  Similarity=0.285  Sum_probs=37.8

Q ss_pred             CCCCcccccchhHHHHHHHHh---cCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          156 SKNRNTVGLDDRMEELLDLLI---EGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       156 ~~~~~~vG~e~~~~~L~~~L~---~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-++++|.+..++.|++=..   .+. ...-+-+||..|.|||+|++.+.+.
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~-pannvLL~G~rGtGKSSlVkall~~   75 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQGL-PANNVLLWGARGTGKSSLVKALLNE   75 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcCC-CCcceEEecCCCCCHHHHHHHHHHH
Confidence            455679999999999887433   232 3445567999999999999999873

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.08  E-value=0.018  Score=47.88  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            46899999999999999999863

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.08  E-value=0.018  Score=49.01  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          26 GEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.07  E-value=0.017  Score=47.37  Aligned_cols=21  Identities=14%  Similarity=0.132  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|+|+.|+||||+++.+-+
T Consensus         4 ~i~~~G~~GsGKst~~~~la~   24 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQ   24 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            578899999999999999976

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.07  E-value=0.018  Score=45.98  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||++.+.++
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3689999999999999887653

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.

>PRK13236 nitrogenase reductase; Reviewed

Probab=95.07  E-value=0.02  Score=51.64  Aligned_cols=23  Identities=13%  Similarity=0.281  Sum_probs=19.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      .+.+||++.|-||+||||.|-.+
T Consensus         4 ~~~~~~~~~GKGGVGKTt~a~NL   26 (296)
T PRK13236          4 ENIRQIAFYGKGGIGKSTTSQNT   26 (296)
T ss_pred             cCceEEEEECCCcCCHHHHHHHH
Confidence            45899999999999999976554

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.06  E-value=0.018  Score=50.12  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        28 Ge~~~l~G~nGsGKSTLl~~l~G   50 (243)
T TIGR02315        28 GEFVAIIGPSGAGKSTLLRCINR   50 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.05  E-value=0.018  Score=49.04  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        28 G~~~~l~G~nGsGKSTLl~~i~G   50 (214)
T TIGR02673        28 GEFLFLTGPSGAGKTTLLKLLYG   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.05  E-value=0.017  Score=51.26  Aligned_cols=20  Identities=25%  Similarity=0.330  Sum_probs=17.5

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ++|+|.|-||+||||+|-.+
T Consensus         3 ~vIav~~KGGVGKTT~a~nL   22 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNT   22 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHH
Confidence            68999999999999988754

>TIGR02012 tigrfam_recA protein RecA

Probab=95.04  E-value=0.049  Score=49.63  Aligned_cols=44  Identities=18%  Similarity=0.134  Sum_probs=29.7

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      .+=+.-+++-|.|++|+||||||.++...  ....=..++||....
T Consensus        50 GGlp~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~   93 (321)
T TIGR02012        50 GGLPRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEH   93 (321)
T ss_pred             CCCcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccc
Confidence            34456789999999999999999876652  222233455665433

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.04  E-value=0.018  Score=49.93  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (241)
T cd03256          27 GEFVALIGPSGAGKSTLLRCLNG   49 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999975

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=95.03  E-value=0.015  Score=46.83  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|++.|.+|+||||++..+..
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~   21 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALIT   21 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999988876

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=95.03  E-value=0.028  Score=48.61  Aligned_cols=44  Identities=27%  Similarity=0.373  Sum_probs=34.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhH----HHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTA----FTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTT----La~~vy~  204 (290)
                      .++||-++..+.|.-...+++  .+-+-|.||+|+||||    ||+.+.-
T Consensus        27 ~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence            568999999888877666655  7778899999999999    4555443

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.02  E-value=0.018  Score=49.00  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          25 GEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            458999999999999999999763

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.

>TIGR00959 ffh signal recognition particle protein

Probab=95.02  E-value=0.17  Score=48.00  Aligned_cols=24  Identities=17%  Similarity=0.138  Sum_probs=20.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...++.++|.+|+||||.|.++-.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999998766654

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.02  E-value=0.019  Score=48.90  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (213)
T cd03259          26 GEFLALLGPSGCGKTTLLRLIAG   48 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.02  E-value=0.047  Score=49.79  Aligned_cols=46  Identities=20%  Similarity=0.198  Sum_probs=31.7

Q ss_pred             CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC
Q 047336          178 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       178 ~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~  225 (290)
                      +=+.-+++-|.|++|+||||||-++.-.  ....-..++||.....++
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~   96 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALD   96 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHH
Confidence            4355678889999999999999887652  223334567776644443

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.01  E-value=0.037  Score=50.85  Aligned_cols=45  Identities=13%  Similarity=0.173  Sum_probs=36.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+. -...+-++|+.|+||||+|+.+..
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~   58 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAK   58 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999887653 234567899999999999977754

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.

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

Probab=95.01  E-value=0.034  Score=47.30  Aligned_cols=52  Identities=17%  Similarity=0.091  Sum_probs=31.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhcccc-----ccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSY-----VKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~-----v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      +..|+|++|.||||++..+-..-.     ....-+..+-++.+.+-.+..++..+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            788999999999976655544210     1133445555555666667777777766

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

Probab=95.01  E-value=0.028  Score=53.05  Aligned_cols=46  Identities=17%  Similarity=0.209  Sum_probs=34.6

Q ss_pred             CcccccchhHHHHHHHHhc-------C-----C--CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-------G-----P--TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-------~-----~--~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.|...+..       .     +  ...+-+-++|+.|+||||||+.+.+
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~  130 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLAR  130 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999988655421       1     0  1235678999999999999999976

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.00  E-value=0.017  Score=54.33  Aligned_cols=26  Identities=23%  Similarity=0.176  Sum_probs=22.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.+.|+|+|..|.|||||++.+.+.
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            44789999999999999999998863

>PRK13948 shikimate kinase; Provisional

Probab=95.00  E-value=0.02  Score=47.87  Aligned_cols=24  Identities=21%  Similarity=0.201  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....|.++||.|+||||+++.+-+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457788999999999999999976

>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=95.00  E-value=0.018  Score=48.09  Aligned_cols=21  Identities=14%  Similarity=0.158  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|.|++|+||||+|+.+...
T Consensus         2 I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999773

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

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=94.99  E-value=0.019  Score=49.38  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        36 Ge~~~i~G~nGsGKSTLl~~i~G   58 (228)
T PRK10584         36 GETIALIGESGSGKSTLLAILAG   58 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            46999999999999999999986

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=94.99  E-value=0.018  Score=47.88  Aligned_cols=23  Identities=22%  Similarity=0.141  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G   47 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAG   47 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            45899999999999999999976

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.98  E-value=0.029  Score=50.14  Aligned_cols=67  Identities=15%  Similarity=0.081  Sum_probs=44.7

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      ..+|+..+.....+..||+|.|.||+||+||.-.+-....-..|=--++=|.-|.+|+--.||-+=+
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRi  103 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRI  103 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHh
Confidence            4567777776656788999999999999999987766332222222234444577777666665433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=94.98  E-value=0.058  Score=51.52  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-+-|+|+.|+|||+|++.+.+.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~  164 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHA  164 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Confidence            456789999999999999999983

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.97  E-value=0.02  Score=48.18  Aligned_cols=24  Identities=13%  Similarity=0.070  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

>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=94.97  E-value=0.02  Score=48.70  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          27 GEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999773

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK14532 adenylate kinase; Provisional

Probab=94.96  E-value=0.018  Score=47.98  Aligned_cols=20  Identities=5%  Similarity=0.042  Sum_probs=18.2

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |-|+|++|+||||+|+.+-.
T Consensus         3 i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999975

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.96  E-value=0.13  Score=48.61  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=20.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+++|..|+||||++..+-.
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999886654

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.95  E-value=0.023  Score=52.35  Aligned_cols=45  Identities=18%  Similarity=0.200  Sum_probs=36.4

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =+.+||.++.+..|...+.+.  ++.-+-|.|..|+||||+|+.+|+
T Consensus        16 f~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~   60 (350)
T CHL00081         16 FTAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVD   60 (350)
T ss_pred             HHHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            356999999888888766653  455566999999999999999966

>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=94.95  E-value=0.02  Score=49.24  Aligned_cols=23  Identities=13%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G   48 (227)
T cd03260          26 GEITALIGPSGCGKSTLLRLLNR   48 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999875

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).

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.95  E-value=0.02  Score=48.44  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (205)
T cd03226          26 GEIIALTGKNGAGKTTLAKILAG   48 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999987

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=94.95  E-value=0.02  Score=49.62  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (236)
T TIGR03864        27 GEFVALLGPNGAGKSTLFSLLTR   49 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999976

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.

>cd04123 Rab21 Rab21 subfamily

Probab=94.94  E-value=0.021  Score=45.57  Aligned_cols=22  Identities=18%  Similarity=0.181  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ki~i~G~~~~GKStli~~l~~~   23 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVEN   23 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999887764

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>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=94.94  E-value=0.021  Score=46.96  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++.++|++|+||||++..+..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~   22 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLAL   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999888765

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=94.94  E-value=0.02  Score=49.73  Aligned_cols=24  Identities=25%  Similarity=0.174  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          28 GELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999773

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.

>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=94.94  E-value=0.038  Score=47.05  Aligned_cols=53  Identities=17%  Similarity=0.125  Sum_probs=33.2

Q ss_pred             ccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          163 GLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       163 G~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      ++.......++.|.    +..++.+.|++|.|||.||-..--+.-..++|+..+++.
T Consensus         4 p~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            45556667777777    255889999999999999976544333346777776664

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.94  E-value=0.021  Score=49.33  Aligned_cols=23  Identities=22%  Similarity=0.131  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =..++|+|+.|+|||||...+.-
T Consensus        31 Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          31 GEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999865

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=94.93  E-value=0.019  Score=48.89  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|+|..|.|||||++.+..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC
Confidence            899999999999999999986

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=94.93  E-value=0.019  Score=45.94  Aligned_cols=20  Identities=15%  Similarity=0.224  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |+++|..|+|||||.+.+.+
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            68999999999999999983

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=94.92  E-value=0.021  Score=50.42  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|+|+|-||+||||++.++-.
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~   24 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAA   24 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhc
Confidence            36899999999999999987655

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.92  E-value=0.037  Score=52.37  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...||.++|..|+||||++.++-.
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998877754

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.

>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=94.92  E-value=0.022  Score=48.77  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (222)
T cd03224          26 GEIVALLGRNGAGKTTLLKTIMG   48 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhC
Confidence            56999999999999999999875

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.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=94.91  E-value=0.017  Score=51.59  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|..|+|||||++.+..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~   21 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTS   21 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999986

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.90  E-value=0.03  Score=55.54  Aligned_cols=45  Identities=9%  Similarity=-0.068  Sum_probs=34.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+..|.+++..+. -..-+-++|+.|+||||+|+.+-+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk   60 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAK   60 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999887553 123377899999999999976543

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=94.90  E-value=0.017  Score=48.37  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +|+|-|+.|+||||+++.+.+.
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~   22 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEH   22 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999874

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>cd01864 Rab19 Rab19 subfamily

Probab=94.90  E-value=0.021  Score=46.19  Aligned_cols=23  Identities=13%  Similarity=0.169  Sum_probs=19.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-|.|+|.+|+|||||+..+..
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhh
Confidence            35678999999999999988754

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

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=94.90  E-value=0.021  Score=48.85  Aligned_cols=23  Identities=26%  Similarity=0.193  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 G~~~~i~G~nGsGKSTLl~~i~G   53 (221)
T TIGR02211        31 GEIVAIVGSSGSGKSTLLHLLGG   53 (221)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

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

Probab=94.90  E-value=0.053  Score=55.07  Aligned_cols=46  Identities=13%  Similarity=0.269  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcC-----C--CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG-----P--TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~-----~--~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.|.+.+...     +  ....++-.+|+.|+|||+||+.+..
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~  506 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAE  506 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHH
Confidence            45889999999999888641     1  2245688999999999999999987

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.90  E-value=0.07  Score=47.09  Aligned_cols=63  Identities=16%  Similarity=0.210  Sum_probs=42.9

Q ss_pred             HHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccC----CeeEEEECCCCCCHHHHHHHHHHH
Q 047336          173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF----DYLAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       173 ~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F----~~~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      +.|..+=..-.|+=|+|.+|+|||.|+-.+.-+..+....    ..++||+-..+|+..++.+ |++.
T Consensus        29 ~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~-i~~~   95 (256)
T PF08423_consen   29 ELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ-IAER   95 (256)
T ss_dssp             HHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH-HHHH
T ss_pred             HhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH-Hhhc
Confidence            3343332446789999999999999998776433332221    3489999999999888754 5554

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=94.90  E-value=0.019  Score=51.08  Aligned_cols=20  Identities=30%  Similarity=0.335  Sum_probs=17.1

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ++|+|.|-||+||||++-.+
T Consensus         2 ~~iav~~KGGVGKTT~~~nL   21 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNT   21 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHH
Confidence            58999999999999977654

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=94.89  E-value=0.022  Score=45.66  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=19.6

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |+|+|.+|+|||||...+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999997753

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

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.89  E-value=0.083  Score=45.74  Aligned_cols=46  Identities=20%  Similarity=0.158  Sum_probs=32.6

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHH-hccccccccCCeeEEEECCCC
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEA-YNSSYVKHYFDYLAWIPAPYQ  223 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~v-y~d~~v~~~F~~~~wV~vs~~  223 (290)
                      |..+=+.-+++.|+|.+|+|||||+.++ |+  .++. =..++|++...+
T Consensus        18 l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~--~~~~-g~~~~y~~~e~~   64 (234)
T PRK06067         18 LGGGIPFPSLILIEGDHGTGKSVLSQQFVYG--ALKQ-GKKVYVITTENT   64 (234)
T ss_pred             hCCCCcCCcEEEEECCCCCChHHHHHHHHHH--HHhC-CCEEEEEEcCCC
Confidence            3344466789999999999999999887 44  2222 235777877654

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.89  E-value=0.022  Score=48.29  Aligned_cols=24  Identities=21%  Similarity=0.062  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         27 GELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999863

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=94.88  E-value=0.021  Score=49.89  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=18.7

Q ss_pred             EEEEEEcC-CCCChhHHHHHHhc
Q 047336          183 SVVAILDS-IGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGm-gGiGKTTLa~~vy~  204 (290)
                      ++|+|+|. ||+|||||+-.+--
T Consensus         2 ~~iai~s~kGGvG~TTltAnLA~   24 (243)
T PF06564_consen    2 KVIAIVSPKGGVGKTTLTANLAW   24 (243)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHH
Confidence            68999998 99999999876643

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=94.88  E-value=0.021  Score=49.02  Aligned_cols=24  Identities=8%  Similarity=0.149  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          31 GETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

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.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=94.87  E-value=0.022  Score=48.80  Aligned_cols=24  Identities=17%  Similarity=0.084  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          26 GEIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=94.86  E-value=0.022  Score=45.74  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.++|.+|+|||||++.+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6899999999999998887743

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.86  E-value=0.02  Score=49.72  Aligned_cols=21  Identities=14%  Similarity=0.298  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|++|+||||+|+.+-+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999866

>PRK02496 adk adenylate kinase; Provisional

Probab=94.85  E-value=0.025  Score=47.07  Aligned_cols=21  Identities=14%  Similarity=0.063  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|+|++|+||||+|+.+-.
T Consensus         3 ~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=94.85  E-value=0.023  Score=44.73  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhccc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      -|.|+|.+|+|||||...+.+..
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            37899999999999999887643

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=94.85  E-value=0.029  Score=55.92  Aligned_cols=45  Identities=20%  Similarity=0.230  Sum_probs=36.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+..|.+++..+. -..-+-++|..|+||||+|+.+-+
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk   60 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAK   60 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHH
Confidence            469999999999999988653 123567899999999999987755

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

Probab=94.84  E-value=0.082  Score=44.00  Aligned_cols=36  Identities=14%  Similarity=0.041  Sum_probs=24.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      -.-+.++|..|+|||.||..+-+.  ...+=-.+.|++
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~--~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANE--AIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHH--hccCCcceeEee
Confidence            345889999999999999999873  222212356665

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.84  E-value=0.033  Score=54.41  Aligned_cols=43  Identities=21%  Similarity=0.230  Sum_probs=35.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|.+..++.+...+....  ..-+-|+|..|+||||+|+.+++
T Consensus        66 ~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            58999999999888765432  33456899999999999999986

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=94.84  E-value=0.022  Score=49.97  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|+|||||++.+...
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.83  E-value=0.033  Score=54.34  Aligned_cols=45  Identities=16%  Similarity=0.154  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+.- ...+-++|+.|+||||+|+.+-+
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~-~ha~Lf~Gp~G~GKTt~A~~lAk   60 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRL-HHAYLFTGTRGVGKTTLARILAK   60 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-CEEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999886541 23456899999999999988754

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.83  E-value=0.036  Score=50.95  Aligned_cols=44  Identities=20%  Similarity=0.222  Sum_probs=34.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+||.+..+..|.-.+.+.  ...-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~~--~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP--KIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC--CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            45899999988887666643  355577999999999999999853

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.

>cd04124 RabL2 RabL2 subfamily

Probab=94.83  E-value=0.023  Score=45.92  Aligned_cols=20  Identities=10%  Similarity=0.210  Sum_probs=17.4

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|.+|+|||||++.+.+
T Consensus         3 i~vvG~~~vGKTsli~~~~~   22 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLM   22 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67999999999999987654

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

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.82  E-value=0.1  Score=45.37  Aligned_cols=56  Identities=18%  Similarity=0.250  Sum_probs=37.9

Q ss_pred             HHHhcCCCCcEEEEEEcCCCCChhHHHHHH-hccccccccCCeeEEEECCCCCCHHHHHHHH
Q 047336          173 DLLIEGPTQLSVVAILDSIGLDKTAFTAEA-YNSSYVKHYFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       173 ~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~v-y~d~~v~~~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      ++|..+=+.-+++-|.|.+|+||||||.++ |+  .. ..=..++||+...  ++..+.+.+
T Consensus        12 ~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~--~~-~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        12 EILHGGIPERNVVLLSGGPGTGKSIFSQQFLWN--GL-QMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             HHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHH--HH-HcCCcEEEEEeeC--CHHHHHHHH
Confidence            334445456789999999999999999764 55  22 2345688888765  344555543

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=94.82  E-value=0.023  Score=48.94  Aligned_cols=24  Identities=13%  Similarity=-0.009  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         33 GEFKLITGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999873

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.81  E-value=0.043  Score=53.32  Aligned_cols=57  Identities=19%  Similarity=0.257  Sum_probs=43.3

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      .+++--..-.+++..||..   +....+++-+.|++|+||||.++.+.+..    .|+.+=|.+
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el----g~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL----GFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh----CCeeEEecC
Confidence            4566667788899999975   23345688999999999999999998732    366667764

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=94.81  E-value=0.021  Score=50.46  Aligned_cols=19  Identities=16%  Similarity=0.370  Sum_probs=16.2

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~v  202 (290)
                      +|+|.|-||+||||++-.+
T Consensus         2 ~i~~~gKGGVGKTT~~~nL   20 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNL   20 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHH
Confidence            6889999999999977654

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=94.81  E-value=0.024  Score=47.98  Aligned_cols=23  Identities=17%  Similarity=0.056  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G   46 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGL   46 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999986

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.

>cd01898 Obg Obg subfamily

Probab=94.81  E-value=0.022  Score=46.11  Aligned_cols=21  Identities=14%  Similarity=0.200  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|+|..|+|||||.+.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998753

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.80  E-value=0.053  Score=56.01  Aligned_cols=46  Identities=15%  Similarity=0.297  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcC-------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG-------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+...+.|.+.+...       +....++-++|+.|+||||||+.+.+
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~  620 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALAN  620 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999888631       12235788999999999999999986

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

Probab=94.80  E-value=0.043  Score=48.22  Aligned_cols=50  Identities=16%  Similarity=0.238  Sum_probs=38.9

Q ss_pred             CCCcccccchhHHH---HHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          157 KNRNTVGLDDRMEE---LLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       157 ~~~~~vG~e~~~~~---L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .-+++||.++.+.+   |++.|..    ++...+-|-.+|++|.|||.+|+.+-|..
T Consensus       119 t~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         119 TLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             cHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            34679998877654   5666654    35677888899999999999999999844

>PRK15453 phosphoribulokinase; Provisional

Probab=94.80  E-value=0.026  Score=50.33  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|+|.|..|+||||+|+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999998764

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.80  E-value=0.02  Score=50.12  Aligned_cols=20  Identities=20%  Similarity=0.370  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|++|+||||+|+.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            67899999999999999876

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.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=94.79  E-value=0.023  Score=49.12  Aligned_cols=23  Identities=22%  Similarity=0.146  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        35 Ge~~~l~G~nGsGKSTLl~~l~G   57 (233)
T PRK11629         35 GEMMAIVGSSGSGKSTLLHLLGG   57 (233)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>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=94.79  E-value=0.023  Score=49.10  Aligned_cols=23  Identities=13%  Similarity=0.164  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G   53 (233)
T cd03258          31 GEIFGIIGRSGAGKSTLIRCING   53 (233)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=94.79  E-value=0.024  Score=48.56  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=94.78  E-value=0.048  Score=44.62  Aligned_cols=36  Identities=22%  Similarity=0.374  Sum_probs=29.2

Q ss_pred             hhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          166 DRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       166 ~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      +..++|.++|..     +++.++|..|+|||||...+..+.
T Consensus        24 ~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhhc
Confidence            456777777762     578899999999999999998864

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>KOG3079 consensus Uridylate kinase/adenylate kinase [Nucleotide transport and metabolism]

Probab=94.78  E-value=0.13  Score=42.72  Aligned_cols=44  Identities=9%  Similarity=0.133  Sum_probs=34.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      ...+||-|.|-+|.||-|....+-.      +|+   |+++|    .-+||++....
T Consensus         6 ~~~~IifVlGGPGsgKgTqC~kiv~------ky~---ftHlS----aGdLLR~E~~~   49 (195)
T KOG3079|consen    6 DKPPIIFVLGGPGSGKGTQCEKIVE------KYG---FTHLS----AGDLLRAEIAS   49 (195)
T ss_pred             cCCCEEEEEcCCCCCcchHHHHHHH------HcC---ceeec----HHHHHHHHHcc
Confidence            4688999999999999999887765      455   66655    56788877655

>cd00157 Rho Rho (Ras homology) family

Probab=94.77  E-value=0.024  Score=45.84  Aligned_cols=22  Identities=9%  Similarity=0.151  Sum_probs=19.2

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999887653

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=94.77  E-value=0.029  Score=52.71  Aligned_cols=25  Identities=16%  Similarity=0.065  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...-+|+|.|..|.|||||++.+..
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~~L~~  234 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVFALDY  234 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999999854

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.77  E-value=0.032  Score=55.28  Aligned_cols=45  Identities=16%  Similarity=0.142  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||.+.-++.|.+++..+. -...+-++|..|+||||+|+.+-+
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAk   60 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAK   60 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHH
Confidence            469999999999999998654 123456799999999999987754

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=94.77  E-value=0.024  Score=49.96  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (255)
T PRK11248         27 GELLVVLGPSGCGKTTLLNLIAG   49 (255)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

>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=94.75  E-value=0.054  Score=46.05  Aligned_cols=42  Identities=17%  Similarity=0.200  Sum_probs=31.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|.+..+..|.=....+    .-+-++|.+|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~----h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGG----HHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC------EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcCC----CCeEEECCCCCCHHHHHHHHHH
Confidence            46889888888777655543    3567899999999999998865

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=94.75  E-value=0.024  Score=48.97  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        12 Ge~~~i~G~nGsGKSTLl~~l~Gl   35 (230)
T TIGR02770        12 GEVLALVGESGSGKSLTCLAILGL   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999873

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK14531 adenylate kinase; Provisional

Probab=94.75  E-value=0.025  Score=47.15  Aligned_cols=22  Identities=18%  Similarity=0.134  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|.|+|++|+||||+++.+-+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999998866

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=94.74  E-value=0.025  Score=48.12  Aligned_cols=24  Identities=21%  Similarity=0.080  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          26 GEFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999874

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.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=94.74  E-value=0.025  Score=48.96  Aligned_cols=23  Identities=9%  Similarity=0.141  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~G   33 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISG   33 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999976

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=94.73  E-value=0.096  Score=43.43  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+-|.|+-|.|||||.+++..
T Consensus         1 Pv~ii~GfLGsGKTTli~~ll~   22 (178)
T PF02492_consen    1 PVIIITGFLGSGKTTLINHLLK   22 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4778899999999999999884

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>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=94.72  E-value=0.024  Score=49.04  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G   48 (236)
T cd03219          26 GEIHGLIGPNGAGKTTLFNLISG   48 (236)
T ss_pred             CcEEEEECCCCCCHHHHHHHHcC
Confidence            46899999999999999999986

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).

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.71  E-value=0.04  Score=54.58  Aligned_cols=43  Identities=16%  Similarity=0.193  Sum_probs=35.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      +++||-+.-+..|.+++..+. -...+-++|..|+||||+|+.+
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~l   58 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRIL   58 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999888653 2245578999999999999888

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.70  E-value=0.037  Score=54.53  Aligned_cols=44  Identities=20%  Similarity=0.163  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcE-EEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLS-VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~-Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+.-.+.|.+++..+.  +. .+-+.|+.|+||||+|+.+-+
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r--~~ha~Lf~Gp~G~GKTt~A~~lAk   57 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR--INHAYLFSGPRGCGKTSSARILAR   57 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998653  43 457899999999999987765

>cd04136 Rap_like Rap-like subfamily

Probab=94.70  E-value=0.026  Score=45.25  Aligned_cols=21  Identities=33%  Similarity=0.412  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|+|.+|+|||||+....+
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~   23 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQ   23 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999887654

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=94.70  E-value=0.032  Score=56.69  Aligned_cols=47  Identities=17%  Similarity=0.178  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHhc---C--------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---G--------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~--------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +++.|.+..+++|.+++..   .        -....-+-++|++|+||||||+.+.+.
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~  235 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE  235 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence            4588999999998887642   1        122456779999999999999999883

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.

>PTZ00035 Rad51 protein; Provisional

Probab=94.69  E-value=0.11  Score=47.67  Aligned_cols=59  Identities=17%  Similarity=0.164  Sum_probs=40.2

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcccccc---c-cCCeeEEEECCCCCCHHHH
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVK---H-YFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~---~-~F~~~~wV~vs~~~~~~~l  229 (290)
                      |-++|..+=+.-.++-|+|..|+|||||+..+.-..+..   . .=..++||.-...|+..++
T Consensus       107 LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri  169 (337)
T PTZ00035        107 LDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI  169 (337)
T ss_pred             HHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH
Confidence            334444554667899999999999999998876432211   0 1134679988887887764

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.69  E-value=0.032  Score=46.44  Aligned_cols=25  Identities=12%  Similarity=0.062  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|.|.|.+|+||||+|+.+..
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~   40 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEK   40 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999999987

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>cd04171 SelB SelB subfamily

Probab=94.69  E-value=0.027  Score=45.14  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|+|..|+|||||...+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            799999999999999998874

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>PRK09354 recA recombinase A; Provisional

Probab=94.68  E-value=0.073  Score=49.01  Aligned_cols=47  Identities=21%  Similarity=0.159  Sum_probs=32.4

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~  225 (290)
                      .+=+.-+++=|.|++|+||||||-++...  ....=..++||..-..++
T Consensus        55 GGip~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~  101 (349)
T PRK09354         55 GGLPRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALD  101 (349)
T ss_pred             CCCcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchH
Confidence            34456788999999999999999887652  223334566766554444

>PRK08181 transposase; Validated

Probab=94.68  E-value=0.13  Score=45.85  Aligned_cols=34  Identities=9%  Similarity=-0.081  Sum_probs=25.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      -+-++|++|+|||.||..+-+  .+......+.+++
T Consensus       108 nlll~Gp~GtGKTHLa~Aia~--~a~~~g~~v~f~~  141 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGL--ALIENGWRVLFTR  141 (269)
T ss_pred             eEEEEecCCCcHHHHHHHHHH--HHHHcCCceeeee
Confidence            478999999999999999987  3333333455555

>cd01860 Rab5_related Rab5-related subfamily

Probab=94.67  E-value=0.027  Score=45.20  Aligned_cols=23  Identities=9%  Similarity=0.199  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhccc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999998887753

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>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=94.67  E-value=0.026  Score=48.67  Aligned_cols=23  Identities=22%  Similarity=0.133  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G   48 (232)
T cd03218          26 GEIVGLLGPNGAGKTTTFYMIVG   48 (232)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.66  E-value=0.14  Score=51.76  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.||+++|+.|+||||.+.++..
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHh
Confidence            47999999999999998877766

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=94.66  E-value=0.026  Score=49.08  Aligned_cols=24  Identities=13%  Similarity=0.072  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         28 GETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=94.66  E-value=0.038  Score=53.48  Aligned_cols=47  Identities=21%  Similarity=0.378  Sum_probs=34.4

Q ss_pred             CcccccchhHHHHHHHHh---c-------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLI---E-------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~---~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++.++++.+++.   .       +....+-+-++|++|+|||+||+.+.+.
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            468898888777766543   1       1122344678999999999999999874

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=94.66  E-value=0.047  Score=51.30  Aligned_cols=46  Identities=11%  Similarity=0.037  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHHhcCCC--------CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPT--------QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~--------~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|.+..++.|.+++..+..        -..-+-++|+.|+||||+|+.+-.
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~   58 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAA   58 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            3589999999999999986421        234567899999999999987643

>smart00072 GuKc Guanylate kinase homologues

Probab=94.65  E-value=0.035  Score=46.29  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.|.|+|+.|+|||||++.+...
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhc
Confidence            457889999999999999999874

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.65  E-value=0.041  Score=48.50  Aligned_cols=24  Identities=8%  Similarity=0.148  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +-.++++||-.|+|||||++.+..
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~   61 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILG   61 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHc
Confidence            456899999999999999999987

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=94.65  E-value=0.026  Score=49.02  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|.|||||.+.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        26 GEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999774

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=94.63  E-value=0.025  Score=45.67  Aligned_cols=20  Identities=30%  Similarity=0.245  Sum_probs=17.6

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|..|+|||||...+..
T Consensus         2 i~~vG~~~~GKstLi~~l~~   21 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKT   21 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhh
Confidence            67999999999999998753

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

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.63  E-value=0.33  Score=45.65  Aligned_cols=70  Identities=21%  Similarity=0.210  Sum_probs=46.7

Q ss_pred             hHHHHHHHHhcC-------CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHH--HHHHHHHHHh
Q 047336          167 RMEELLDLLIEG-------PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPD--QILDTVTWLS  237 (290)
Q Consensus       167 ~~~~L~~~L~~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~--~ll~~Il~~l  237 (290)
                      -.++|++.|..+       .....||-.||.-|.||||-+-++-+  ..++ ....+-+.-...|.+.  +=|+.+.+|+
T Consensus        78 V~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~--~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~  154 (451)
T COG0541          78 VYEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAK--YLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQV  154 (451)
T ss_pred             HHHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHH--HHHH-cCCceEEEecccCChHHHHHHHHHHHHc
Confidence            456777777632       13478999999999999998877666  3344 4555555555555554  4466777776


Q ss_pred             hh
Q 047336          238 RR  239 (290)
Q Consensus       238 ~~  239 (290)
                      .-
T Consensus       155 ~v  156 (451)
T COG0541         155 GV  156 (451)
T ss_pred             CC
Confidence            53

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

Probab=94.62  E-value=0.028  Score=45.43  Aligned_cols=23  Identities=9%  Similarity=0.147  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.|.|+|..|+|||||+..+.+.
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~   23 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRA   23 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcC
Confidence            36889999999999999998874

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

>PRK07429 phosphoribulokinase; Provisional

Probab=94.62  E-value=0.03  Score=51.21  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=22.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.-+|+|.|..|+|||||++.+..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~   30 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLAD   30 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999999999986

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.62  E-value=0.028  Score=47.45  Aligned_cols=25  Identities=16%  Similarity=0.048  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.+++|+|..|.|||||++.+...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3568999999999999999999773

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=94.62  E-value=0.028  Score=47.32  Aligned_cols=25  Identities=12%  Similarity=0.068  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999774

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>TIGR00017 cmk cytidylate kinase

Probab=94.61  E-value=0.029  Score=48.26  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~   24 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAE   24 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.61  E-value=0.028  Score=47.14  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999985

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=94.61  E-value=0.03  Score=47.46  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|+|.|+.|.|||||.+.+.+
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~   23 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTR   23 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999997

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK10908 cell division protein FtsE; Provisional

Probab=94.60  E-value=0.028  Score=48.20  Aligned_cols=24  Identities=8%  Similarity=0.008  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         28 GEMAFLTGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=94.60  E-value=0.028  Score=48.93  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (242)
T cd03295          27 GEFLVLIGPSGSGKTTTMKMINR   49 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.59  E-value=0.028  Score=50.46  Aligned_cols=22  Identities=14%  Similarity=0.231  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|-++|.+|+||||+|+.+-+
T Consensus         3 ~liil~G~pGSGKSTla~~L~~   24 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAA   24 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5778899999999999999876

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=94.59  E-value=0.042  Score=53.20  Aligned_cols=45  Identities=11%  Similarity=0.010  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+.-...|.+.+..+. -..-+-++|+.|+||||+|+.+.+
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk   65 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAK   65 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence            468999999999888776543 234566899999999999999876

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=94.59  E-value=0.029  Score=47.60  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G   48 (208)
T cd03268          26 GEIYGFLGPNGAGKTTTMKIILG   48 (208)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999976

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=94.58  E-value=0.027  Score=49.14  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (247)
T TIGR00972        27 NQVTALIGPSGCGKSTLLRSLNR   49 (247)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999864

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=94.58  E-value=0.029  Score=47.67  Aligned_cols=25  Identities=12%  Similarity=0.007  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +-.+++|+|..|.|||||++.+..-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999873

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=94.58  E-value=0.029  Score=48.19  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|.|||||++.+..-
T Consensus        34 Ge~~~l~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        34 GECVALSGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999863

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>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=94.56  E-value=0.029  Score=47.92  Aligned_cols=23  Identities=22%  Similarity=0.102  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (218)
T cd03266          31 GEVTGLLGPNGAGKTTTLRMLAG   53 (218)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

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.

>cd04177 RSR1 RSR1 subgroup

Probab=94.56  E-value=0.029  Score=45.60  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=18.4

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.++|.+|+|||||.+...++
T Consensus         4 i~liG~~~~GKTsli~~~~~~   24 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQN   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887653

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=94.56  E-value=0.029  Score=45.11  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|.+|+|||||+..+.+
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            368999999999999988754

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

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=94.56  E-value=0.029  Score=47.70  Aligned_cols=23  Identities=22%  Similarity=0.147  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 G~~~~l~G~nGsGKSTLl~~l~G   48 (213)
T cd03262          26 GEVVVIIGPSGSGKSTLLRCINL   48 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999986

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

>cd04140 ARHI_like ARHI subfamily

Probab=94.55  E-value=0.03  Score=45.41  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.++|.+|+|||||.+.+.+.
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999877653

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>PLN02165 adenylate isopentenyltransferase

Probab=94.55  E-value=0.03  Score=51.12  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-.+|+|+|+.|+||||||..+...
T Consensus        41 ~~g~iivIiGPTGSGKStLA~~LA~~   66 (334)
T PLN02165         41 CKDKVVVIMGATGSGKSRLSVDLATR   66 (334)
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHHH
Confidence            34559999999999999999988763

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=94.55  E-value=0.085  Score=45.08  Aligned_cols=52  Identities=10%  Similarity=-0.090  Sum_probs=36.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      -..|+|=|.-|+||||+++.++.  ..+.+.-.++|..=+..-.+.+..+.++.
T Consensus         3 g~fI~iEGiDGaGKTT~~~~L~~--~l~~~g~~v~~trEP~~~~ige~iR~~ll   54 (208)
T COG0125           3 GMFIVIEGIDGAGKTTQAELLKE--RLEERGIKVVLTREPGGTPIGEKIRELLL   54 (208)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEeCCCCChHHHHHHHHHc
Confidence            35789999999999999999999  55554445666655555444555555553

>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=94.55  E-value=0.031  Score=44.73  Aligned_cols=24  Identities=8%  Similarity=0.076  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999873

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.

>PRK13973 thymidylate kinase; Provisional

Probab=94.54  E-value=0.094  Score=44.83  Aligned_cols=23  Identities=9%  Similarity=0.019  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..|.|-|..|+||||+++.+++.
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~   26 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAER   26 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57889999999999999999984

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=94.53  E-value=0.27  Score=43.21  Aligned_cols=73  Identities=15%  Similarity=0.045  Sum_probs=43.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC--CCCCCHHHHHHHH---HHHhhhcCCCchhhHHHHhHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA--PYQYDPDQILDTV---TWLSRRNLSFSRSWIQKENIAA  255 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v--s~~~~~~~ll~~I---l~~l~~~~~~~~~~~~~~~~~~  255 (290)
                      +-..+.++|+.|+||||+.+.|+.  .+. +=.-.+.+.-  -.+.+..++-++|   ++++.--..    ++-.+||+-
T Consensus        26 ~gef~vliGpSGsGKTTtLkMINr--Lie-pt~G~I~i~g~~i~~~d~~~LRr~IGYviQqigLFPh----~Tv~eNIa~   98 (309)
T COG1125          26 EGEFLVLIGPSGSGKTTTLKMINR--LIE-PTSGEILIDGEDISDLDPVELRRKIGYVIQQIGLFPH----LTVAENIAT   98 (309)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhc--ccC-CCCceEEECCeecccCCHHHHHHhhhhhhhhcccCCC----ccHHHHHHh
Confidence            356788999999999999999986  332 2233344432  1345666666665   444433222    344566655


Q ss_pred             Hhhhc
Q 047336          256 LWKIS  260 (290)
Q Consensus       256 ~~~~~  260 (290)
                      +-++.
T Consensus        99 VP~L~  103 (309)
T COG1125          99 VPKLL  103 (309)
T ss_pred             hhhhc
Confidence            44443

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=94.53  E-value=0.029  Score=49.11  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         32 NQVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999974

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=94.53  E-value=0.031  Score=46.03  Aligned_cols=23  Identities=17%  Similarity=0.193  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G   50 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILG   50 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999986

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=94.52  E-value=0.031  Score=45.17  Aligned_cols=23  Identities=9%  Similarity=0.180  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-|.|+|.+|+|||||...+.+.
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999988763

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=94.52  E-value=0.03  Score=49.47  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        38 Ge~~~I~G~NGsGKSTLlk~l~G   60 (257)
T PRK11247         38 GQFVAVVGRSGCGKSTLLRLLAG   60 (257)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.52  E-value=0.029  Score=49.06  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14247         29 NTITALMGPSGSGKSTLLRVFNR   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=94.52  E-value=0.029  Score=49.37  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~laG   52 (258)
T PRK14241         30 RSVTAFIGPSGCGKSTVLRTLNR   52 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999985

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=94.51  E-value=0.029  Score=49.18  Aligned_cols=23  Identities=13%  Similarity=0.224  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||.|.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            37899999999999999999987

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.51  E-value=0.029  Score=47.49  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|.|||||++.+..-
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhccc
Confidence            469999999999999999998763

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.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=94.51  E-value=0.031  Score=46.34  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G   47 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAG   47 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999987

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PF13245 AAA_19: Part of AAA domain

Probab=94.51  E-value=0.033  Score=39.54  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=17.0

Q ss_pred             cEEEEEEcCCCCChh-HHHHHHhc
Q 047336          182 LSVVAILDSIGLDKT-AFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKT-TLa~~vy~  204 (290)
                      -++..|.|.+|.||| |+++.+..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456678999999999 55555554

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=94.51  E-value=0.055  Score=44.40  Aligned_cols=34  Identities=18%  Similarity=0.070  Sum_probs=24.3

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+.+++...  +...|.++|.+|+|||||...+..
T Consensus         4 ~~~~~~~~~~--~~~kv~~~G~~~~GKTsl~~~l~~   37 (174)
T cd04153           4 SSLWSLFFPR--KEYKVIIVGLDNAGKTTILYQFLL   37 (174)
T ss_pred             hHHHHHhcCC--CccEEEEECCCCCCHHHHHHHHcc
Confidence            3445544322  245678999999999999998865

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

>TIGR01351 adk adenylate kinases

Probab=94.51  E-value=0.027  Score=47.96  Aligned_cols=20  Identities=15%  Similarity=0.165  Sum_probs=18.2

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|++|+||||+|+.+-.
T Consensus         2 I~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999865

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=94.50  E-value=0.041  Score=54.39  Aligned_cols=45  Identities=13%  Similarity=0.161  Sum_probs=36.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+. -..-+-++|+.|+||||+|+.+-+
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk   68 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILAR   68 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence            569999999999999988653 123466899999999999988855

>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=94.50  E-value=0.04  Score=45.54  Aligned_cols=37  Identities=11%  Similarity=0.054  Sum_probs=24.8

Q ss_pred             EEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ  223 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~  223 (290)
                      +-|.|.+|+|||+|+..+... ..+.. ..++|++...+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~-~~~~g-~~v~~~s~e~~   38 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYA-GLARG-EPGLYVTLEES   38 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH-HHHCC-CcEEEEECCCC
Confidence            568999999999999876442 22221 34677776543

A related protein is found in archaea.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=94.48  E-value=0.034  Score=45.67  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|+|+|.+|+|||||++.+.+
T Consensus         3 kv~l~G~~g~GKTtl~~~~~~   23 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFVE   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            477999999999999988865

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

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.48  E-value=0.031  Score=48.94  Aligned_cols=22  Identities=32%  Similarity=0.318  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -.+++|+|..|.|||||++.+.
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~i~   50 (250)
T PRK14245         29 KSVVAFIGPSGCGKSTFLRLFN   50 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4689999999999999999985

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=94.47  E-value=0.034  Score=46.25  Aligned_cols=26  Identities=12%  Similarity=0.106  Sum_probs=23.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+.-|+|+|.+|+|||||.+.+.+.
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            45778999999999999999999874

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=94.46  E-value=0.029  Score=49.58  Aligned_cols=20  Identities=20%  Similarity=0.333  Sum_probs=16.8

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      .||+|.|-||+||||++-.+
T Consensus         1 ~~i~v~gKGGvGKTT~a~nL   20 (267)
T cd02032           1 MVLAVYGKGGIGKSTTSSNL   20 (267)
T ss_pred             CEEEEecCCCCCHHHHHHHH
Confidence            37899999999999977654

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=94.46  E-value=0.028  Score=50.73  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|+|+|-||+||||+|-.+-.
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~   22 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSH   22 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999998876644

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=94.45  E-value=0.045  Score=54.47  Aligned_cols=45  Identities=18%  Similarity=0.165  Sum_probs=36.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||.+..++.|.+.+..+. -...+-++|..|+||||+|+.+.+
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk   60 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAK   60 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999888654 123356899999999999998865

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=94.45  E-value=0.031  Score=49.09  Aligned_cols=24  Identities=13%  Similarity=0.202  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

>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=94.45  E-value=0.033  Score=45.62  Aligned_cols=24  Identities=13%  Similarity=0.022  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

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

>PLN02924 thymidylate kinase

Probab=94.44  E-value=0.084  Score=45.53  Aligned_cols=54  Identities=7%  Similarity=-0.108  Sum_probs=33.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      .-..|+|-|..|+||||+++.+.+..... .+....+=..+......+.+++++.
T Consensus        15 ~g~~IviEGiDGsGKsTq~~~L~~~l~~~-g~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         15 RGALIVLEGLDRSGKSTQCAKLVSFLKGL-GVAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCceeeeCCCCCChHHHHHHHHHh
Confidence            35689999999999999999999844322 2443222111222334556666654

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=94.43  E-value=0.031  Score=48.52  Aligned_cols=24  Identities=21%  Similarity=0.165  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         27 GEVVVIIGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999763

>PRK08939 primosomal protein DnaI; Reviewed

Probab=94.43  E-value=0.12  Score=46.95  Aligned_cols=56  Identities=16%  Similarity=0.108  Sum_probs=34.8

Q ss_pred             cchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC
Q 047336          164 LDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP  221 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs  221 (290)
                      +........+++..-  .....-+-++|..|+|||.||..+.+.  ....=-.+.+++++
T Consensus       136 ~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~--l~~~g~~v~~~~~~  193 (306)
T PRK08939        136 RLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANE--LAKKGVSSTLLHFP  193 (306)
T ss_pred             HHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEEEHH
Confidence            333444455555531  123456779999999999999999994  33322235666653

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=94.43  E-value=0.06  Score=49.01  Aligned_cols=47  Identities=21%  Similarity=0.185  Sum_probs=34.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQ  228 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~  228 (290)
                      +.-+++-|+|..|+||||||-.+..  .....-..++||.....++...
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia--~~q~~g~~~a~ID~e~~ld~~~   97 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIA--EAQKQGGICAFIDAEHALDPEY   97 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH--HHHHTT-EEEEEESSS---HHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHH--hhhcccceeEEecCcccchhhH
Confidence            4567999999999999999999987  4444456789998877666543

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PRK14528 adenylate kinase; Provisional

Probab=94.43  E-value=0.033  Score=46.59  Aligned_cols=22  Identities=9%  Similarity=0.066  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.|.|.|++|+||||+|+.+..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~   23 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCE   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999865

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=94.42  E-value=0.064  Score=44.54  Aligned_cols=24  Identities=17%  Similarity=0.046  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -..|.|+|.+|+|||||++.+..+
T Consensus        17 ~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178       17 HAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999988764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=94.42  E-value=0.056  Score=44.17  Aligned_cols=45  Identities=20%  Similarity=0.251  Sum_probs=34.1

Q ss_pred             EEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC-----CCCCCHHHHHHHHHHHhh
Q 047336          185 VAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA-----PYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v-----s~~~~~~~ll~~Il~~l~  238 (290)
                      |.-++..|+||||+|..+.+      .|.-  |-+|     +.. ....+.+.+++.|.
T Consensus         2 lvPIAtiGCGKTTva~aL~~------LFg~--wgHvQnDnI~~k-~~~~f~~~~l~~L~   51 (168)
T PF08303_consen    2 LVPIATIGCGKTTVALALSN------LFGE--WGHVQNDNITGK-RKPKFIKAVLELLA   51 (168)
T ss_pred             EeeecCCCcCHHHHHHHHHH------HcCC--CCccccCCCCCC-CHHHHHHHHHHHHh
Confidence            44568899999999998887      4554  5544     344 67889999999983

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>cd01858 NGP_1 NGP-1

Probab=94.42  E-value=0.075  Score=42.93  Aligned_cols=25  Identities=8%  Similarity=0.070  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      -..|+++|++|+||+||...+..+.
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCC
Confidence            4567899999999999999998754

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=94.42  E-value=0.054  Score=42.29  Aligned_cols=26  Identities=19%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .-.||...|.=|.|||||+|.+....
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            35799999999999999999998744

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=94.42  E-value=0.033  Score=48.83  Aligned_cols=25  Identities=16%  Similarity=0.163  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         30 EQEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999999863

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=94.42  E-value=0.033  Score=47.50  Aligned_cols=24  Identities=21%  Similarity=0.185  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|.|||||++.+...
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~   47 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGF   47 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999999874

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=94.42  E-value=0.061  Score=45.45  Aligned_cols=34  Identities=15%  Similarity=0.160  Sum_probs=24.7

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.+..+....  -++..|.|.+|.||||+++.+.+
T Consensus         7 ~~a~~~~l~~~--~~~~~l~G~aGtGKT~~l~~~~~   40 (196)
T PF13604_consen    7 REAVRAILTSG--DRVSVLQGPAGTGKTTLLKALAE   40 (196)
T ss_dssp             HHHHHHHHHCT--CSEEEEEESTTSTHHHHHHHHHH
T ss_pred             HHHHHHHHhcC--CeEEEEEECCCCCHHHHHHHHHH
Confidence            34444444333  45777899999999999998876

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=94.41  E-value=0.032  Score=48.36  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (237)
T cd03252          28 GEVVGIVGRSGSGKSTLTKLIQR   50 (237)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999975

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=94.41  E-value=0.034  Score=45.80  Aligned_cols=24  Identities=17%  Similarity=0.146  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999773

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.41  E-value=0.031  Score=49.17  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        38 Ge~~~l~G~nGsGKSTLl~~l~G   60 (259)
T PRK14274         38 NEVTAIIGPSGCGKSTFIKTLNL   60 (259)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999864

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.41  E-value=0.033  Score=48.54  Aligned_cols=23  Identities=13%  Similarity=0.160  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G   51 (241)
T PRK14250         29 GAIYTIVGPSGAGKSTLIKLINR   51 (241)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999986

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=94.41  E-value=0.17  Score=48.22  Aligned_cols=48  Identities=23%  Similarity=0.325  Sum_probs=32.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcccccccc-CCe-eEEEECCCCCCHHHHHHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHY-FDY-LAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~-F~~-~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      ..-+-|+|..|+|||+|++.+.+  .+... .+. ..|++.      .+++.++...+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~--~l~~~~~~~~v~yi~~------~~f~~~~~~~~  179 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITS------EKFLNDLVDSM  179 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHH--HHHHhCCCCeEEEEEH------HHHHHHHHHHH
Confidence            44588999999999999999999  44333 343 455553      34555555444

>cd00880 Era_like Era (E

Probab=94.40  E-value=0.021  Score=44.86  Aligned_cols=19  Identities=5%  Similarity=0.160  Sum_probs=17.2

Q ss_pred             EEcCCCCChhHHHHHHhcc
Q 047336          187 ILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       187 IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|++|+|||||++.+++.
T Consensus         1 i~G~~gsGKstl~~~l~~~   19 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQ   19 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCc
Confidence            5799999999999999874

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.39  E-value=0.035  Score=52.31  Aligned_cols=24  Identities=29%  Similarity=0.213  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...++.++|++|+||||++.++-.
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999988765

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=94.39  E-value=0.031  Score=47.26  Aligned_cols=20  Identities=20%  Similarity=0.238  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      +++|+|..|.|||||++.++
T Consensus        24 ~~~i~G~nGsGKStll~al~   43 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIR   43 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            88999999999999999886

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=94.39  E-value=0.033  Score=48.45  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         29 GEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999773

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=94.38  E-value=0.034  Score=46.00  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999999873

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=94.38  E-value=0.033  Score=48.70  Aligned_cols=23  Identities=30%  Similarity=0.195  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        29 Ge~~~i~G~nGsGKSTLl~~l~G   51 (250)
T PRK11264         29 GEVVAIIGPSGSGKTTLLRCINL   51 (250)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999876

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=94.38  E-value=0.032  Score=49.35  Aligned_cols=24  Identities=13%  Similarity=0.077  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         37 GKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            468999999999999999999863

>PRK14974 cell division protein FtsY; Provisional

Probab=94.37  E-value=0.037  Score=50.80  Aligned_cols=24  Identities=21%  Similarity=0.163  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|.++|++|+||||++..+..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~  162 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAY  162 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999997776665

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=94.36  E-value=0.033  Score=44.92  Aligned_cols=23  Identities=17%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++|+|+|..|+|||||...+...
T Consensus         1 ~~i~iiG~~~~GKtsli~~l~~~   23 (168)
T cd01887           1 PVVTVMGHVDHGKTTLLDKIRKT   23 (168)
T ss_pred             CEEEEEecCCCCHHHHHHHHHhc
Confidence            47999999999999999998764

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=94.35  E-value=0.034  Score=48.28  Aligned_cols=23  Identities=17%  Similarity=0.101  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        47 Ge~~~i~G~NGsGKSTLl~~i~G   69 (236)
T cd03267          47 GEIVGFIGPNGAGKTTTLKILSG   69 (236)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.35  E-value=0.036  Score=45.25  Aligned_cols=23  Identities=22%  Similarity=0.151  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G   48 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSG   48 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999986

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.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=94.35  E-value=0.034  Score=48.66  Aligned_cols=23  Identities=13%  Similarity=0.224  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (252)
T PRK14239         31 NEITALIGPSGSGKSTLLRSINR   53 (252)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999953

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=94.33  E-value=0.037  Score=49.85  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=18.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      +.++|+|.|-||+||||++-.+
T Consensus         3 ~~~~iai~~KGGvGKTt~~~nL   24 (295)
T PRK13234          3 KLRQIAFYGKGGIGKSTTSQNT   24 (295)
T ss_pred             cceEEEEECCCCccHHHHHHHH
Confidence            4689999999999999977653

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.33  E-value=0.035  Score=46.12  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999863

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=94.33  E-value=0.035  Score=46.93  Aligned_cols=22  Identities=9%  Similarity=0.071  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|+|+|+.|+||||+++.+.+
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~   23 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQ   23 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999876

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.32  E-value=0.037  Score=45.50  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G   50 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLR   50 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            46899999999999999999987

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=94.32  E-value=0.034  Score=45.23  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            579999999999999888764

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=94.30  E-value=0.034  Score=48.99  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        39 Ge~~~i~G~nGsGKSTLl~~l~G   61 (260)
T PRK10744         39 NQVTAFIGPSGCGKSTLLRTFNR   61 (260)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999975

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.30  E-value=0.034  Score=48.68  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        30 Ge~~~l~G~nGsGKSTLl~~l~G   52 (253)
T PRK14267         30 NGVFALMGPSGCGKSTLLRTFNR   52 (253)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999975

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=94.30  E-value=0.035  Score=48.60  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G   52 (252)
T PRK14256         30 NSVTAIIGPSGCGKSTVLRSINR   52 (252)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999999976

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=94.30  E-value=0.034  Score=49.33  Aligned_cols=23  Identities=13%  Similarity=0.190  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (271)
T PRK13638         27 SPVTGLVGANGCGKSTLFMNLSG   49 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            45899999999999999999976

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=94.29  E-value=0.035  Score=47.84  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .=.+++|+|..|.|||||++.+..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G   48 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMG   48 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            356899999999999999999976

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=94.29  E-value=0.035  Score=49.23  Aligned_cols=23  Identities=13%  Similarity=0.107  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        50 Ge~~~l~G~nGsGKSTLl~~L~G   72 (269)
T cd03294          50 GEIFVIMGLSGSGKSTLLRCINR   72 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=94.29  E-value=0.036  Score=47.73  Aligned_cols=21  Identities=14%  Similarity=0.066  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|+||.|+||+|.|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999998854

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=94.28  E-value=0.036  Score=44.78  Aligned_cols=20  Identities=25%  Similarity=0.473  Sum_probs=17.1

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|.+|+|||||+....+
T Consensus         2 i~vvG~~~~GKtsli~~~~~   21 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLT   21 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            68999999999999976543

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

>PRK00279 adk adenylate kinase; Reviewed

Probab=94.27  E-value=0.033  Score=47.63  Aligned_cols=21  Identities=14%  Similarity=0.058  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|++|+||||+|+.+-.
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>PHA02518 ParA-like protein; Provisional

Probab=94.27  E-value=0.034  Score=46.97  Aligned_cols=20  Identities=25%  Similarity=0.443  Sum_probs=16.7

Q ss_pred             EEEEEEcC-CCCChhHHHHHH
Q 047336          183 SVVAILDS-IGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGm-gGiGKTTLa~~v  202 (290)
                      ++|+|++. ||+||||+|-.+
T Consensus         1 ~ii~v~~~KGGvGKTT~a~~l   21 (211)
T PHA02518          1 KIIAVLNQKGGAGKTTVATNL   21 (211)
T ss_pred             CEEEEEcCCCCCCHHHHHHHH
Confidence            37888865 999999998875

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=94.26  E-value=0.035  Score=49.46  Aligned_cols=23  Identities=17%  Similarity=0.108  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~i~G   55 (280)
T PRK13649         33 GSYTAFIGHTGSGKSTIMQLLNG   55 (280)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.26  E-value=0.14  Score=50.97  Aligned_cols=56  Identities=11%  Similarity=0.116  Sum_probs=38.5

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhhhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRRN  240 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~~~  240 (290)
                      +.-++.-..|++|+||||||.-|-++..    | .++=|..|..-+...+-..|..-+..+
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~  379 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNH  379 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhc
Confidence            3457888899999999999999887321    2 245566777766666666665544433

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=94.26  E-value=0.036  Score=49.27  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        50 Ge~~~I~G~nGsGKSTLl~~i~G   72 (271)
T PRK14238         50 NEVTAIIGPSGCGKSTYIKTLNR   72 (271)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46999999999999999999975

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=94.26  E-value=0.035  Score=49.21  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G   55 (269)
T PRK11831         33 GKITAIMGPSGIGKTTLLRLIGG   55 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999976

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

Probab=94.25  E-value=0.035  Score=51.33  Aligned_cols=54  Identities=9%  Similarity=0.041  Sum_probs=35.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC----CCC-CHHHHHHHHHHHhh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP----YQY-DPDQILDTVTWLSR  238 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs----~~~-~~~~ll~~Il~~l~  238 (290)
                      .-...++|||++|+|||.+|+.+++.  ..-.|   +-++.+    +.. ...+.++++.+...
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e--lg~~~---i~vsa~eL~sk~vGEsEk~IR~~F~~A~  204 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK--MGIEP---IVMSAGELESENAGEPGKLIRQRYREAA  204 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH--cCCCe---EEEEHHHhhcCcCCcHHHHHHHHHHHHH
Confidence            45789999999999999999999994  33333   222221    111 44566666665443

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=94.25  E-value=0.034  Score=50.91  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus        33 Ge~~~lvG~sGsGKSTL~~~l~G   55 (326)
T PRK11022         33 GEVVGIVGESGSGKSVSSLAIMG   55 (326)
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999877

>PRK13974 thymidylate kinase; Provisional

Probab=94.24  E-value=0.11  Score=44.33  Aligned_cols=25  Identities=12%  Similarity=-0.057  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSY  207 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~  207 (290)
                      .+|++.|..|+||||+++.+.....
T Consensus         4 ~~i~~eG~dGsGKsT~~~~l~~~l~   28 (212)
T PRK13974          4 KFIVLEGIDGCGKTTQIDHLSKWLP   28 (212)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999998543

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=94.24  E-value=0.037  Score=48.70  Aligned_cols=24  Identities=21%  Similarity=0.189  Sum_probs=21.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|+|..|.|||||++.+..-
T Consensus        32 Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         32 GEVLGIVGESGSGKTTLLNALSAR   55 (258)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999873

>PRK07933 thymidylate kinase; Validated

Probab=94.23  E-value=0.081  Score=45.34  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhccc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .|+|-|+-|+||||+++.+.+..
T Consensus         2 ~IviEG~dGsGKST~~~~L~~~L   24 (213)
T PRK07933          2 LIAIEGVDGAGKRTLTEALRAAL   24 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999843

>cd04114 Rab30 Rab30 subfamily

Probab=94.23  E-value=0.044  Score=44.28  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....|.++|.+|+|||||...+..
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~   29 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQ   29 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHh
Confidence            357899999999999999988763

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

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

Probab=94.23  E-value=0.062  Score=50.66  Aligned_cols=47  Identities=13%  Similarity=0.139  Sum_probs=35.3

Q ss_pred             CCcccccchhHHHHHHHHh-------c--CC---C----CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          158 NRNTVGLDDRMEELLDLLI-------E--GP---T----QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~-------~--~~---~----~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..++|.++.++.+...+.       .  ..   .    ....|-++|++|+|||+||+.+..
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~  138 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLAR  138 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHH
Confidence            3458999999998876552       1  01   1    135788999999999999999986

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.23  E-value=0.09  Score=45.23  Aligned_cols=47  Identities=19%  Similarity=0.105  Sum_probs=31.4

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ  223 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~  223 (290)
                      |..+=+.-.++.|.|.+|.|||||+..+... ..+ .=...+|++...+
T Consensus        13 l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~-~~~-~g~~~~~is~e~~   59 (229)
T TIGR03881        13 LEGGIPRGFFVAVTGEPGTGKTIFCLHFAYK-GLR-DGDPVIYVTTEES   59 (229)
T ss_pred             hcCCCcCCeEEEEECCCCCChHHHHHHHHHH-HHh-cCCeEEEEEccCC
Confidence            3334345689999999999999999875432 222 2345778876443

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.

---

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	290
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	4e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 56.4 bits (136), Expect = 4e-09
 Identities = 30/217 (13%), Positives = 65/217 (29%), Gaps = 10/217 (4%)

Query: 44  WLREFED-DISCLLFHKIAEEEIDDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQS 102
                +D   S ++ H I++  +   +   + +E       +  +I  ++         S
Sbjct: 13  REALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQ-QQRAAMLIKMILKK-DNDSYVS 70

Query: 103 RYNKDICDALQGLQSRITEIKQRVQQLKHTDPKI-MDNFRSVEAESGYFPASSSSKNRNT 161
            YN  + +  + L + + +    V      D    + ++       G  P          
Sbjct: 71  FYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPV----VF 126

Query: 162 VGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVK--HYFDYLAWIP 219
           V     +  +   L +   +   V I    G  K+   AEA     +    +   + W+ 
Sbjct: 127 VTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS 186

Query: 220 APYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIAAL 256
              Q     ++      +R +   S S     NI   
Sbjct: 187 VGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEA 223

>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 = 47.9 bits (113), Expect = 2e-06
 Identities = 40/247 (16%), Positives = 87/247 (35%), Gaps = 41/247 (16%)

Query: 32  HNLNAEV-EIVTSW---LREFEDDISCLLFHKIAEEEIDDPDFGTIMDEI-NCFTYESGK 86
           H+++ E  E    +   L  FED              +D+ D   + D   +  + E   
Sbjct: 5   HHMDFETGEHQYQYKDILSVFEDAF------------VDNFDCKDVQDMPKSILSKE--- 49

Query: 87  VIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQRVQQLKHTD-PKIMDNFRSV-E 144
            ID +I S     S +     +   L   Q  +  +++ V+++   +   +M   ++   
Sbjct: 50  EIDHIIMS-KDAVSGTLR---LFWTLLSKQEEM--VQKFVEEVLRINYKFLMSPIKTEQR 103

Query: 145 AESGYFPASSSSKNR--NTVGLDDRM----EELLDLLIEGPTQLSV---VAILDSIGLDK 195
             S         ++R  N   +  +      +    L +   +L     V I   +G  K
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163

Query: 196 TAFTAEAYNSSYVKHYFDY-LAWIPAPYQYDPDQILDTVTWLSRRNLSFSRSWIQKENIA 254
           T    +   S  V+   D+ + W+       P+ +L+ +  L  +      +W  + + +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ---IDPNWTSRSDHS 220

Query: 255 ALWKISI 261
           +  K+ I
Sbjct: 221 SNIKLRI 227

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	290
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.79
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.73
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.49
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.49
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.31
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.61
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.46
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.44
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.44
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.38
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.24
2fna_A	357	Conserved hypothetical protein; structural genomic	98.09
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.84
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.81
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.72
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.66
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.64
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.43
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.31
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.29
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.14
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.13
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.1
3bos_A	242	Putative DNA replication factor; P-loop containing	97.06
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.06
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.04
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.04
3co5_A	143	Putative two-component system transcriptional RES	97.04
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.03
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.0
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.98
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.98
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.98
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.95
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.9
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.9
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.88
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.87
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.84
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.84
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.84
3pvs_A	447	Replication-associated recombination protein A; ma	96.82
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.81
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.81
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.8
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.8
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.79
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.78
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.73
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.72
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.65
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.62
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.61
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.58
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.58
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.56
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.53
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.53
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.53
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.48
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.46
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.46
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.46
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.45
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.44
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.4
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.39
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.38
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.38
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.37
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.36
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.35
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.35
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.34
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.34
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.33
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.33
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.33
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.3
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.3
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.29
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.29
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.29
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.28
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.28
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.28
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.28
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.27
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.27
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.25
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.24
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.24
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.23
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.22
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.22
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.2
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.2
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.2
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.18
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.18
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.18
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.16
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.16
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.14
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.11
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.11
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.1
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.09
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.09
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.09
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.09
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.06
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.04
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.04
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.04
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.03
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.03
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.02
1via_A	175	Shikimate kinase; structural genomics, transferase	96.02
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.02
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.01
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.01
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.01
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.0
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.0
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.99
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.99
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.97
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.97
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.97
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.95
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.95
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.94
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.94
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.93
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.93
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.93
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.91
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.9
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.9
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.89
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.89
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.89
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.89
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.88
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.86
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.86
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.86
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.86
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.86
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.85
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.82
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.81
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.81
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.77
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.77
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.76
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.75
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.74
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.73
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.73
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.72
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.71
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.7
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.68
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.66
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.66
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.66
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.66
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.65
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.64
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.63
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.62
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.62
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.62
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.61
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.61
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.61
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.6
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.6
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.59
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.57
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.55
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.54
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.54
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.53
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.53
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.53
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.49
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.49
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.49
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.47
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.46
2qgz_A	308	Helicase loader, putative primosome component; str	95.45
2xxa_A	433	Signal recognition particle protein; protein trans	95.45
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.45
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.44
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.44
1g6h_A	257	High-affinity branched-chain amino acid transport	95.43
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.43
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.43
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.43
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.43
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.41
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.41
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.4
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.38
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.37
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.37
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.35
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.35
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.33
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.33
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.32
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.31
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.31
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.31
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.31
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.31
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.3
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.3
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.29
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.29
2og2_A	359	Putative signal recognition particle receptor; nuc	95.27
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.26
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.25
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.24
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.24
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.22
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.22
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.21
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.21
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.18
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.18
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.17
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.16
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.15
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.15
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.15
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.15
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.14
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.13
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.1
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.08
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.06
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.04
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.03
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.03
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.01
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.99
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.99
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.99
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.96
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.94
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.94
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.93
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.92
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.92
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.89
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.89
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.87
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.83
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.83
3end_A	307	Light-independent protochlorophyllide reductase ir	94.83
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.8
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.8
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.79
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.75
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.74
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.74
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.73
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.72
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.72
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.7
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.69
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.69
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.67
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.64
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.64
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.63
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.6
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.57
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.55
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.55
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.54
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.54
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.54
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.52
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.49
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.49
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.48
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.47
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.47
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.46
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.44
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.42
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.42
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.42
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.41
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.4
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.38
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.37
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.37
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.37
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	94.36
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.36
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.34
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.33
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.33
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.32
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.32
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.31
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.3
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.3
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.29
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.27
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.26
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.26
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.24
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.22
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.21
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.21
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.21
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.19
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.19
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.16
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.16
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.15
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.15
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.14
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.13
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.12
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.11
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.1
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.09
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.09
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.08
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.08
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.07
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.07
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.07
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.05
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.05
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.05
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.04
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.03
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.03
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.03
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.02
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.02
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.99
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.97
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.94
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.94
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.91
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.91
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.89
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.89
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.85
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.85
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	93.84
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.83
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.82
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.82
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.81
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.8
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.78
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.77
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.76
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.74
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.73
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.71
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.7
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.7
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.7
3io5_A	333	Recombination and repair protein; storage dimer, i	93.69
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.69
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.69
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.68
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.67
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.66
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.66
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.65
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.65
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.62
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.6
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.6
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.58
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.57
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.56
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.56
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.56
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.56
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.54
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.54
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.53
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.53
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.52
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.49
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.48
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.46
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	93.46
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.46
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.45
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.44
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.43
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.42
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.4
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.4
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.39
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.39
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	93.33
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.32
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.29
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.25
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.25
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.25
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.23
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.23
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.21
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.2
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	93.2
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.2
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.18
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.17
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	93.17
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.15
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.13
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.09
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	93.08
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.08
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.05
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.03
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.02
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.02
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.01
2r6a_A	454	DNAB helicase, replicative helicase; replication,	92.97
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	92.97
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	92.96
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.96
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	92.96
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	92.96
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	92.94
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	92.92
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	92.91
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	92.86
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	92.86
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.84
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	92.82
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.82
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.76
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.76
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.69
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.66
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.61
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.57
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	92.54
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.51
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	92.51
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.51
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.47
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.46
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.43
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	92.41
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.4
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	92.39
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	92.32
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	92.3
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	92.29
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	92.27
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	92.26
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	92.25
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.22
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.21
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.2
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.19
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	92.18
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	92.09
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.04
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	92.02
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	92.01
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	91.95
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	91.93
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	91.9
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	91.86
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	91.82
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	91.8
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	91.74
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	91.7
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	91.58
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.58
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	91.55
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	91.52

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.79  E-value=9e-20  Score=140.27  Aligned_cols=82  Identities=23%  Similarity=0.265  Sum_probs=76.6

Q ss_pred             cHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhh--hcCCchHHHHHHHHHHH
Q 047336            3 ISFRLFSERLRRVLAGEEVMLSDTAKQPIHNLNAEVEIVTSWLREFEDDISCLLFHKIAEE--EIDDPDFGTIMDEINCF   80 (290)
Q Consensus         3 ~~v~~~l~kL~~~~l~~e~~~~~~v~~~v~~L~~eL~~i~~~l~d~~~~~~~~~~~~~~~~--~~~~~~~~~Wl~~lr~~   80 (290)
                      ++|+++++||+ +++.+|+.++.||++++++|+++|++|++||.|++            .+  +..++.++.|+++||++
T Consensus         1 a~v~~ll~KL~-~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~------------~~~~~~~d~~vk~W~~~vrdl   67 (115)
T 3qfl_A            1 AAISNLIPKLG-ELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIG------------EVPREQLDSQDKLWADEVREL   67 (115)
T ss_dssp             CTTCSHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT------------TSCGGGCCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHH-HHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHH------------HhccccCCHHHHHHHHHHHHH
Confidence            36788999999 99999999999999999999999999999999999            55  56899999999999999


Q ss_pred             HHHhHhHHHHHHhhhhc
Q 047336           81 TYESGKVIDTLINSITQ   97 (290)
Q Consensus        81 a~d~eD~lD~~~~~~~~   97 (290)
                      +||+||+||+|.++..+
T Consensus        68 aYD~ED~iD~f~~~~~~   84 (115)
T 3qfl_A           68 SYVIEDVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            99999999999998764

>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=99.73  E-value=1.3e-17  Score=161.13  Aligned_cols=115  Identities=9%  Similarity=0.111  Sum_probs=90.9

Q ss_pred             cccchhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhc--cccccccCCeeEEEECCCCC--CHHHHHHHHHHH
Q 047336          162 VGLDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYN--SSYVKHYFDYLAWIPAPYQY--DPDQILDTVTWL  236 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~--d~~v~~~F~~~~wV~vs~~~--~~~~ll~~Il~~  236 (290)
                      +||+.++++|.++|..+ +...+||+||||||+||||||+.+|+  +.+++.+|++++||+||+.+  ++..+++.|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            69999999999999865 45689999999999999999999998  67899999999999999985  899999999999


Q ss_pred             hhhcCCCchhhHHHHhHHHHhhhccccchhhHHHHHHHHhhc---ceEE--Eeccc
Q 047336          237 SRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWAD---YLIF--EISEY  287 (290)
Q Consensus       237 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~---yLiV--~~~~~  287 (290)
                      +........       +   .+.+...... +...|+++|++   ||||  |+|..
T Consensus       211 l~~~~~~~~-------~---~~~~~~~~~~-l~~~l~~~L~~~kr~LlVLDdv~~~  255 (549)
T 2a5y_B          211 LKSEDDLLN-------F---PSVEHVTSVV-LKRMICNALIDRPNTLFVFDDVVQE  255 (549)
T ss_dssp             HTTTSCCTT-------C---CCCTTCCHHH-HHHHHHHHHTTSTTEEEEEEEECCH
T ss_pred             HhcCccccc-------c---cccccccHHH-HHHHHHHHHcCCCcEEEEEECCCCc
Confidence            986532000       0   0011111112 77889999965   9999  88763

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.49  E-value=3.5e-14  Score=143.33  Aligned_cols=77  Identities=21%  Similarity=0.210  Sum_probs=69.7

Q ss_pred             ccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCe-eEEEECCCCCCHHHHHHHHHHHhh
Q 047336          161 TVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDY-LAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~-~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      .|||+.+.++|.++|...+ ..++|+|+||||+||||||+.+|++.++..+|++ ++||++++.++...++..|++.+.
T Consensus       130 ~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            4999999999999998632 3789999999999999999999998889999998 899999999999999998888654

>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=99.49  E-value=6.9e-14  Score=145.50  Aligned_cols=116  Identities=16%  Similarity=0.135  Sum_probs=84.0

Q ss_pred             CCCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccc-cccCC-eeEEEECCCCCC--HHHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYV-KHYFD-YLAWIPAPYQYD--PDQILDT  232 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v-~~~F~-~~~wV~vs~~~~--~~~ll~~  232 (290)
                      ....+|||+.++++|.++|...+...++|+|+||||+||||||+++|++... ..+|. .+.||++++.++  ....++.
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            4566999999999999999876677999999999999999999999997543 44554 567999999654  3445777


Q ss_pred             HHHHhhhcCCCchhhHHHHhHHHHhhhccccchhhHHHHHHHHhhc----ceEE--Eecc
Q 047336          233 VTWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWAD----YLIF--EISE  286 (290)
Q Consensus       233 Il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~----yLiV--~~~~  286 (290)
                      ++..+......+              .......+.+...|+.+|.+    ||||  |+|+
T Consensus       202 ~~~~l~~~~~~~--------------~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~  247 (1249)
T 3sfz_A          202 LCMRLDQEESFS--------------QRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD  247 (1249)
T ss_dssp             HHHHHTTTCTTC--------------SSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCC
T ss_pred             HHHHhhhhcccc--------------cCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCC
Confidence            777776543210              00111111267778888854    8988  6664

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.31  E-value=6.8e-12  Score=121.61  Aligned_cols=76  Identities=18%  Similarity=0.188  Sum_probs=62.8

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccc-cccC-CeeEEEECCCCCCHHHHHHHHH
Q 047336          158 NRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYV-KHYF-DYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v-~~~F-~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      ...+|||+.+.++|.++|.......++|+|+||||+||||||+.+|++..+ ..+| +.++|++++.. +...++..+.
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            456999999999999999865556899999999999999999999997655 7789 47999999876 4445555543

>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=98.61  E-value=1.1e-07  Score=87.37  Aligned_cols=80  Identities=14%  Similarity=0.076  Sum_probs=60.6

Q ss_pred             CcccccchhHHHHHHHH-hc---C-CCCcEEEEE--EcCCCCChhHHHHHHhccccccc-----cCCe-eEEEECCCCCC
Q 047336          159 RNTVGLDDRMEELLDLL-IE---G-PTQLSVVAI--LDSIGLDKTAFTAEAYNSSYVKH-----YFDY-LAWIPAPYQYD  225 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L-~~---~-~~~~~Vi~I--vGmgGiGKTTLa~~vy~d~~v~~-----~F~~-~~wV~vs~~~~  225 (290)
                      ..++||+.+.+.|.++| ..   + ......+-|  +|++|+||||||+.+++.  ...     .|+. .+|+..+...+
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~   99 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR--VSEAAAKEGLTVKQAYVNAFNAPN   99 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHH--HHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHH--HHHHHhccCCceeEEEEECCCCCC
Confidence            67999999999999998 42   2 022344555  999999999999999984  332     2343 57888777788


Q ss_pred             HHHHHHHHHHHhhhc
Q 047336          226 PDQILDTVTWLSRRN  240 (290)
Q Consensus       226 ~~~ll~~Il~~l~~~  240 (290)
                      ...+++.|+.++...
T Consensus       100 ~~~~~~~l~~~l~~~  114 (412)
T 1w5s_A          100 LYTILSLIVRQTGYP  114 (412)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCC
Confidence            999999999988643

>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=98.46  E-value=4.8e-07  Score=82.32  Aligned_cols=79  Identities=11%  Similarity=0.016  Sum_probs=62.0

Q ss_pred             CcccccchhHHHHHHHHhc--CCCCcEEEEEEcCCCCChhHHHHHHhcccccccc--------CCeeEEEECCCCC-CHH
Q 047336          159 RNTVGLDDRMEELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHY--------FDYLAWIPAPYQY-DPD  227 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~--~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~--------F~~~~wV~vs~~~-~~~  227 (290)
                      .+++|++...++|.++|..  .....+.+.|+|++|+||||||+.+++.  ....        ....+|+..+... +..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNE--IEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHH--HHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            6799999999999988865  2334568899999999999999999983  3221        2346788777666 888


Q ss_pred             HHHHHHHHHhhh
Q 047336          228 QILDTVTWLSRR  239 (290)
Q Consensus       228 ~ll~~Il~~l~~  239 (290)
                      .++..++.++..
T Consensus        98 ~~~~~l~~~l~~  109 (384)
T 2qby_B           98 AVLSSLAGKLTG  109 (384)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcC
Confidence            899999988853

>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=98.44  E-value=2.2e-06  Score=77.96  Aligned_cols=79  Identities=13%  Similarity=0.086  Sum_probs=62.5

Q ss_pred             CcccccchhHHHHHHHHhc---C-CCCcEEEEEEcCCCCChhHHHHHHhccccccccC-CeeEEEECCCCCCHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIE---G-PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF-DYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F-~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      ..++|++...+.|.+++..   + ....+.+.|+|++|+|||||++.+.+.  ..... ...+|+..+...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            6799999999999999875   2 223448899999999999999999983  33322 246778878888888999999


Q ss_pred             HHHhhh
Q 047336          234 TWLSRR  239 (290)
Q Consensus       234 l~~l~~  239 (290)
                      +..+..
T Consensus        95 ~~~l~~  100 (389)
T 1fnn_A           95 ARSLNI  100 (389)
T ss_dssp             HHHTTC
T ss_pred             HHHhCc
Confidence            988854

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.44  E-value=8.6e-07  Score=80.42  Aligned_cols=79  Identities=11%  Similarity=0.053  Sum_probs=62.9

Q ss_pred             CcccccchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhccccccccC-----C-eeEEEECCCCCCHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF-----D-YLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F-----~-~~~wV~vs~~~~~~~ll  230 (290)
                      ..++|++...+.|..+|...  ......+.|+|++|+||||||+.+.+.  ....+     + ..+|+..+...+...++
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~--~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRR--LEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHH--HHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            67999999999999998642  344667889999999999999999983  32211     2 36788888888888999


Q ss_pred             HHHHHHhhh
Q 047336          231 DTVTWLSRR  239 (290)
Q Consensus       231 ~~Il~~l~~  239 (290)
                      ..++.++..
T Consensus        97 ~~l~~~l~~  105 (387)
T 2v1u_A           97 SAIAEAVGV  105 (387)
T ss_dssp             HHHHHHHSC
T ss_pred             HHHHHHhCC
Confidence            999988854

>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=98.38  E-value=4.2e-07  Score=82.36  Aligned_cols=79  Identities=14%  Similarity=0.094  Sum_probs=59.7

Q ss_pred             CCcccccchhHHHHHHHHhcC--CCCcEEEEEEcCCCCChhHHHHHHhccccccccC---CeeEEEECCCCCCHHHHHHH
Q 047336          158 NRNTVGLDDRMEELLDLLIEG--PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF---DYLAWIPAPYQYDPDQILDT  232 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~--~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F---~~~~wV~vs~~~~~~~ll~~  232 (290)
                      ..+++|++.+.+.|.+++...  ......+.|+|++|+||||||+.+.+  .....|   ...+|+..+...+...++..
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLS--KLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHH--HHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHH--HHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            367999999999999998752  34466888999999999999999998  444443   24577776665666777777


Q ss_pred             HHHHhh
Q 047336          233 VTWLSR  238 (290)
Q Consensus       233 Il~~l~  238 (290)
                      ++.++.
T Consensus        97 i~~~l~  102 (386)
T 2qby_A           97 LLESLD  102 (386)
T ss_dssp             HTTTTS
T ss_pred             HHHHhC
Confidence            766664

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.24  E-value=1e-06  Score=78.73  Aligned_cols=71  Identities=8%  Similarity=0.082  Sum_probs=54.5

Q ss_pred             CCCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC------CCHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ------YDPDQIL  230 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~------~~~~~ll  230 (290)
                      ....++||+.+.+.|.+++..+    +++.|+|++|+|||||++.+.+..      + .+|+.+...      .+...++
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHH
Confidence            4467999999999999998753    689999999999999999999842      2 667766433      2566677


Q ss_pred             HHHHHHhh
Q 047336          231 DTVTWLSR  238 (290)
Q Consensus       231 ~~Il~~l~  238 (290)
                      +.+.+.+.
T Consensus        79 ~~l~~~l~   86 (350)
T 2qen_A           79 KELQSTIS   86 (350)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHHHH
Confidence            77666553

>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=98.09  E-value=4.8e-06  Score=74.45  Aligned_cols=70  Identities=10%  Similarity=0.073  Sum_probs=52.1

Q ss_pred             CCCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC-----CCHHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ-----YDPDQILD  231 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~-----~~~~~ll~  231 (290)
                      ....++||+.+.+.|.+ +..     +++.|+|++|+|||||++.+.+.  ...   ..+|+.....     .+...++.
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHh--cCC---CEEEEEchhhccccCCCHHHHHH
Confidence            44679999999999999 653     58999999999999999999984  222   2578887642     34556666


Q ss_pred             HHHHHh
Q 047336          232 TVTWLS  237 (290)
Q Consensus       232 ~Il~~l  237 (290)
                      .+.+.+
T Consensus        80 ~l~~~l   85 (357)
T 2fna_A           80 ELQKEI   85 (357)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.84  E-value=1.6e-05  Score=64.11  Aligned_cols=45  Identities=16%  Similarity=0.263  Sum_probs=38.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|+++..+.+.+++..+.  ...+-|+|++|+||||||+.+.+.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999987643  445679999999999999999873

>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=97.81  E-value=4.2e-05  Score=63.16  Aligned_cols=69  Identities=14%  Similarity=0.139  Sum_probs=47.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCC-eeEEEECCCCCCHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFD-YLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~-~~~wV~vs~~~~~~~ll  230 (290)
                      .+++|++...+.|.+++....  ...+-|+|++|+||||||+.+.+... ...+. ..+.+..+.......+.
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~   86 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVR   86 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHH
Confidence            468999999999999998654  33388999999999999999987321 11222 23445555555544443

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.72  E-value=2.6e-05  Score=62.78  Aligned_cols=44  Identities=18%  Similarity=0.237  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|++...+.+.+++....  ...+-|+|++|+||||||+.+.+
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~--~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT--KNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEESCGGGCHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC--CCceEEECCCCCCHHHHHHHHHH
Confidence            458999999999999987643  44567999999999999999987

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.66  E-value=4.4e-05  Score=68.22  Aligned_cols=80  Identities=8%  Similarity=0.013  Sum_probs=58.6

Q ss_pred             ccccchhHHHHHHHHhc--CCCCcEEEEEEcCCCCChhHHHHHHhccccccc---cC-C-eeEEEECCCCCCHHHHHHHH
Q 047336          161 TVGLDDRMEELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH---YF-D-YLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~--~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~---~F-~-~~~wV~vs~~~~~~~ll~~I  233 (290)
                      +.||+++.++|...|..  .....+.+-|+|++|+|||++++.|.+...-..   .. . ..+.|.-..-.+...+...|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            88999999999998875  234567778999999999999999998432111   11 1 24566656667788999999


Q ss_pred             HHHhhhc
Q 047336          234 TWLSRRN  240 (290)
Q Consensus       234 l~~l~~~  240 (290)
                      ++++.+.
T Consensus       102 ~~~L~g~  108 (318)
T 3te6_A          102 WFAISKE  108 (318)
T ss_dssp             HHHHSCC
T ss_pred             HHHhcCC
Confidence            9999654

>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=97.64  E-value=4.9e-05  Score=63.51  Aligned_cols=46  Identities=17%  Similarity=0.167  Sum_probs=39.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|++..++.|..++..+. ....+.|+|++|+||||||+.+.+.
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999998653 2347889999999999999999873

>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=97.43  E-value=0.00015  Score=63.84  Aligned_cols=75  Identities=12%  Similarity=0.102  Sum_probs=51.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc-cCC-eeEEEECCCCCCHHHHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH-YFD-YLAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~-~~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      .+++|++...+.|.+++..+.  .+.+-++|++|+||||+|+.+.+.  ... .+. ..+++..+..... ..+++++..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~--l~~~~~~~~~~~~~~~~~~~~-~~i~~~~~~   95 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHE--LLGRSYADGVLELNASDDRGI-DVVRNQIKH   95 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHH--HHGGGHHHHEEEECTTSCCSH-HHHHTHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHH--hcCCcccCCEEEecCccccCh-HHHHHHHHH
Confidence            468999999999999998654  333889999999999999999873  211 122 2445555554443 334555555


Q ss_pred             hh
Q 047336          237 SR  238 (290)
Q Consensus       237 l~  238 (290)
                      +.
T Consensus        96 ~~   97 (323)
T 1sxj_B           96 FA   97 (323)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.31  E-value=0.00016  Score=56.70  Aligned_cols=45  Identities=11%  Similarity=0.121  Sum_probs=34.7

Q ss_pred             cccccchhHHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          160 NTVGLDDRMEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +++|......++.+.+.. ...... |-|+|..|+|||+||+.+++.
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~-vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIA-VWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSC-EEEESSTTSSHHHHHHHHHHS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCC-EEEECCCCCCHHHHHHHHHHh
Confidence            578999999999988864 222233 469999999999999999983

>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=97.29  E-value=0.00023  Score=62.81  Aligned_cols=45  Identities=16%  Similarity=0.231  Sum_probs=38.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|++..++.|.+++..+.  .+.+-++|++|+||||+|+.+.+.
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~l~~~   69 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARE   69 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHH
Confidence            458999999999999988764  444889999999999999999883

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.14  E-value=0.00035  Score=60.73  Aligned_cols=48  Identities=15%  Similarity=0.189  Sum_probs=38.4

Q ss_pred             CCcccccchhHHHHHHHHhcC-----------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          158 NRNTVGLDDRMEELLDLLIEG-----------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~~-----------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|.+..++.|.+.+...           -....-+-|+|++|+||||||+.+.+.
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            356999999999999887431           123456889999999999999999883

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.13  E-value=0.0005  Score=56.56  Aligned_cols=52  Identities=13%  Similarity=0.013  Sum_probs=34.4

Q ss_pred             hHHHHHHHHhcCCC--CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC
Q 047336          167 RMEELLDLLIEGPT--QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA  220 (290)
Q Consensus       167 ~~~~L~~~L~~~~~--~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v  220 (290)
                      ..+.+..++.....  ....+-|+|++|+||||||+.+++  .........++++.
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~--~~~~~~~~~~~~~~   90 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIAN--ELAKRNVSSLIVYV   90 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHH--HHHTTTCCEEEEEH
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEh
Confidence            34445555554322  126788999999999999999998  44444445666654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.10  E-value=0.00029  Score=62.90  Aligned_cols=46  Identities=15%  Similarity=0.165  Sum_probs=38.6

Q ss_pred             CcccccchhHHHHHHHHhcC---CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG---PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~---~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.+..++...   ......+-|+|++|+||||||+.+.+
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            56999999999999988752   33455678999999999999999987

>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=97.06  E-value=0.00067  Score=56.80  Aligned_cols=58  Identities=10%  Similarity=0.075  Sum_probs=36.4

Q ss_pred             ccccc---chhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC
Q 047336          160 NTVGL---DDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP  221 (290)
Q Consensus       160 ~~vG~---e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs  221 (290)
                      +++|.   +...+.+..++...  ....+-|+|++|+||||||+.+.+  ..........|++.+
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~--~~~~~~~~~~~~~~~   89 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACA--RANELERRSFYIPLG   89 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEEGG
T ss_pred             hccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHH--HHHHcCCeEEEEEHH
Confidence            45652   24445555554433  356778999999999999999987  333223345566554

>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=97.06  E-value=0.00065  Score=60.00  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+..+..++..   .......+-|+|++|+||||||+.+++
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999888863   122345677999999999999999988

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.04  E-value=0.00049  Score=57.18  Aligned_cols=37  Identities=16%  Similarity=0.161  Sum_probs=28.2

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.+.+......-.+|+|+|..|.|||||++.+..
T Consensus         8 ~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A            8 CQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             HHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3455555543334578999999999999999998876

>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=97.04  E-value=0.00051  Score=60.62  Aligned_cols=47  Identities=28%  Similarity=0.277  Sum_probs=37.8

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+++..           +-.....+-++|++|+||||||+.+.+.
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHH
Confidence            4699999999998887752           1133557889999999999999999983

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.04  E-value=0.00019  Score=56.18  Aligned_cols=46  Identities=9%  Similarity=0.027  Sum_probs=33.4

Q ss_pred             CcccccchhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..+.++.+.+..- ..... |-|+|..|+|||++|+.+++.
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~-vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSP-VFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSC-EEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCc-EEEECCCCccHHHHHHHHHHh
Confidence            35889999999988887641 12233 558999999999999999983

>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=97.03  E-value=0.00043  Score=61.82  Aligned_cols=45  Identities=16%  Similarity=0.107  Sum_probs=38.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++.++.|..++..+.  .+.+-++|++|+||||||+.+.+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC--CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999988654  223789999999999999999873

>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=97.00  E-value=0.00057  Score=55.22  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-..+.|+|+.|+|||||++.+.+.
T Consensus        37 ~g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           37 EGKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             GCCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3568899999999999999999883

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.98  E-value=0.00064  Score=63.89  Aligned_cols=44  Identities=14%  Similarity=0.274  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.++|++..++.+...|....  ..-+-++|.+|+||||||+.+.+
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~--~~~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            459999999999999997643  23346899999999999999887

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.98  E-value=0.00048  Score=60.49  Aligned_cols=45  Identities=13%  Similarity=0.118  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHHhc-------------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIE-------------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~-------------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|.+..++.|.+++..             .......+-|+|++|+||||||+.+.+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            589999999988877642             123345678999999999999987766

>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=96.98  E-value=0.00046  Score=59.00  Aligned_cols=46  Identities=13%  Similarity=0.153  Sum_probs=35.3

Q ss_pred             CcccccchhHHHHHHHHhc---CC-------CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE---GP-------TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~-------~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..   ..       ....-+-++|++|+||||||+.+.+
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            4689999888888776532   11       2334567999999999999999988

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.95  E-value=0.00084  Score=55.48  Aligned_cols=41  Identities=20%  Similarity=0.160  Sum_probs=32.5

Q ss_pred             cchhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          164 LDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++...+.|.+++... .....+|+|.|..|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            345667788877753 34568999999999999999998876

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.90  E-value=0.00058  Score=59.71  Aligned_cols=47  Identities=15%  Similarity=0.176  Sum_probs=37.5

Q ss_pred             CcccccchhHHHHHHHHhcC----------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEG----------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~----------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+++...          ......+-|+|++|+||||||+.+.+.
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            46999999999999887431          112457789999999999999999883

>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=96.90  E-value=0.00064  Score=60.51  Aligned_cols=47  Identities=17%  Similarity=0.232  Sum_probs=37.5

Q ss_pred             CcccccchhHHHHHHHHhc----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+.+..          ......-+-++|++|+|||+||+.+.+.
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            5699999999999988731          1122456789999999999999999883

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.88  E-value=0.00092  Score=60.17  Aligned_cols=47  Identities=23%  Similarity=0.227  Sum_probs=35.9

Q ss_pred             CcccccchhHHHH---HHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEEL---LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L---~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++++|.+..++.+   .+.+..+......+-|+|++|+||||||+.+.+.
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4699999887764   4444444333457889999999999999999883

>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=96.87  E-value=0.00065  Score=60.85  Aligned_cols=46  Identities=20%  Similarity=0.175  Sum_probs=35.7

Q ss_pred             CcccccchhHHHHHHHHhcC---CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG---PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~---~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|.+..++.+-..+..+   ......+.++|+.|+||||||+.+.+
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            45788887777776666532   23456789999999999999999987

>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=96.84  E-value=0.00052  Score=54.47  Aligned_cols=20  Identities=25%  Similarity=0.280  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>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=96.84  E-value=0.0065  Score=50.14  Aligned_cols=47  Identities=9%  Similarity=0.137  Sum_probs=35.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      ..-.++.|+|.+|+|||||+..+..     ..=..++|++....++...+.+
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~~   64 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLVQ   64 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHHH
Confidence            3456899999999999999998876     1124578888777666655543

>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=96.84  E-value=0.0012  Score=59.37  Aligned_cols=46  Identities=17%  Similarity=0.176  Sum_probs=37.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|++..++.|.+++..+.. ...+-|+|+.|+||||||+.+.+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~-~~~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRI-HHAYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCC-CSEEEEESCTTSSHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCC-CeEEEEECCCCCCHHHHHHHHHHH
Confidence            3599999999999999976532 236679999999999999998763

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.82  E-value=0.00074  Score=63.11  Aligned_cols=44  Identities=16%  Similarity=0.214  Sum_probs=36.7

Q ss_pred             CcccccchhH---HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRM---EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~---~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+   ..|...+..+.  +..+-++|++|+||||||+.+.+
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~--~~~vLL~GppGtGKTtlAr~ia~   72 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGH--LHSMILWGPPGTGKTTLAEVIAR   72 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTC--CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCC--CcEEEEECCCCCcHHHHHHHHHH
Confidence            4689988887   67777777654  56788999999999999999998

>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=96.81  E-value=0.0011  Score=63.07  Aligned_cols=47  Identities=13%  Similarity=0.141  Sum_probs=39.2

Q ss_pred             CcccccchhHHHHHHHHhcC---------------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEG---------------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~---------------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+||...               ....+.+-|+|++|+||||||+.+.+.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56999999999999999751               013468889999999999999999883

>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=96.81  E-value=0.0012  Score=58.00  Aligned_cols=38  Identities=21%  Similarity=0.192  Sum_probs=28.6

Q ss_pred             hHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          167 RMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       167 ~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+.|.+.+..    ......+|+|+|..|+||||||+.+..
T Consensus        12 ~~~~l~~~i~~~~~~~~~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           12 TIEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             HHHHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44455554443    345678999999999999999998866

>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=96.80  E-value=0.00074  Score=61.08  Aligned_cols=46  Identities=9%  Similarity=0.076  Sum_probs=37.2

Q ss_pred             CcccccchhHHHHHHHHhc----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..          ......-+-|+|++|+||||||+.+.+
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999888742          112355678999999999999999987

>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=96.80  E-value=0.00089  Score=58.70  Aligned_cols=44  Identities=18%  Similarity=0.192  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++..+.  .+.+-++|++|+||||+|+.+.+
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~   60 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALAR   60 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC--CCCEEEESSSSSSHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCC--CCeEEEECcCCcCHHHHHHHHHH
Confidence            458999999999998887653  33378999999999999999987

>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=96.79  E-value=0.0014  Score=56.40  Aligned_cols=47  Identities=17%  Similarity=0.132  Sum_probs=33.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+.....+.+.+..-...-.-+-|+|..|+|||+||+.+++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            34789999999988877642111234568999999999999999983

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.78  E-value=0.001  Score=56.99  Aligned_cols=47  Identities=21%  Similarity=0.236  Sum_probs=34.4

Q ss_pred             CcccccchhHHHHHHHHh---cC-------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLI---EG-------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~---~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..+++|.+.+.   ..       .....-+.|+|+.|+||||||+.+.+.
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            468999988887766542   11       011234779999999999999999873

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.73  E-value=0.0015  Score=58.22  Aligned_cols=47  Identities=19%  Similarity=0.290  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHHhc---------C-CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---------G-PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---------~-~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+.+..         + ....+-+-++|++|+|||+||+.+.+.
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            5689999999998887641         1 122356789999999999999999983

>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=96.72  E-value=0.00085  Score=58.65  Aligned_cols=46  Identities=13%  Similarity=0.182  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhc------------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE------------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~------------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.|...+..            ......-+-++|.+|+||||||+.+.+
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999888764            011234566999999999999999987

>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=96.65  E-value=0.00085  Score=60.07  Aligned_cols=44  Identities=11%  Similarity=0.012  Sum_probs=35.3

Q ss_pred             CcccccchhHHHHHHHH-hcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLL-IEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L-~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+...+.|.+++ ..+.  .+.+.|+|+.|+||||||+.+.+
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~--~~~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRD--LPHLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC--CCCEEEECSTTSSHHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCC--CCeEEEECCCCCCHHHHHHHHHH
Confidence            45899999999888888 4433  22388999999999999998765

>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=96.62  E-value=0.001  Score=54.01  Aligned_cols=24  Identities=13%  Similarity=0.113  Sum_probs=21.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+|+|+|+.|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999773

>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=96.61  E-value=0.001  Score=52.90  Aligned_cols=22  Identities=9%  Similarity=0.027  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||+|+.+..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999865

>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=96.58  E-value=0.0017  Score=58.06  Aligned_cols=44  Identities=16%  Similarity=0.212  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|..++..+.  ++.+.++|+.|+||||+|+.+.+
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~--~~~~ll~Gp~G~GKTtla~~la~   68 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAR   68 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHH
Confidence            457898888888888887664  33488999999999999998876

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.58  E-value=0.0013  Score=57.63  Aligned_cols=45  Identities=18%  Similarity=0.306  Sum_probs=36.7

Q ss_pred             cccccchhHHHHHHHHhcC-------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIEG-------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.+..++.|...+...       ......+.++|.+|+||||||+.+.+
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHH
Confidence            4789999999888888642       12245789999999999999999987

>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=96.56  E-value=0.0014  Score=56.34  Aligned_cols=47  Identities=17%  Similarity=0.262  Sum_probs=35.0

Q ss_pred             CcccccchhHHHHHHHHhc----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+.+..          +.....-+-++|++|+||||||+.+.+.
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            4699999888888876641          1111223668999999999999999883

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.53  E-value=0.002  Score=64.03  Aligned_cols=44  Identities=14%  Similarity=0.274  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|++..++.+...|....  ..-+-++|.+|+||||+|+.+.+
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~--~~~vLL~G~pGtGKT~la~~la~  223 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQ  223 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999998643  23356999999999999998876

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.53  E-value=0.0017  Score=57.50  Aligned_cols=46  Identities=17%  Similarity=0.163  Sum_probs=36.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|....+.++.+.+..-.....-+-|+|..|+|||++|+.+++
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHH
Confidence            4589999999999998875222233455999999999999999987

>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=96.53  E-value=0.0018  Score=58.51  Aligned_cols=45  Identities=13%  Similarity=0.121  Sum_probs=35.8

Q ss_pred             cccccchhHHHHHHHHhc-------------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIE-------------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~-------------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.+..++.|...+..             .......+-++|++|+|||++|+.+.+
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            479999999999888731             112345678999999999999999987

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.48  E-value=0.0014  Score=53.95  Aligned_cols=23  Identities=13%  Similarity=0.160  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|+|+.|+||||+++.+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.46  E-value=0.0011  Score=52.92  Aligned_cols=22  Identities=9%  Similarity=0.231  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|+|+.|+|||||++.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.46  E-value=0.0016  Score=52.12  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.46  E-value=0.0014  Score=53.14  Aligned_cols=23  Identities=9%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||++.+..
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            35899999999999999999976

>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=96.45  E-value=0.0018  Score=58.53  Aligned_cols=47  Identities=17%  Similarity=0.232  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhc----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+.+..          ......-|-++|++|+|||+||+.+.+.
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            4699999999999987731          1112344678999999999999999983

>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=96.44  E-value=0.0017  Score=65.44  Aligned_cols=44  Identities=16%  Similarity=0.337  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.++|++.....+++.|....  ..-+-++|.+|+||||||+.+.+
T Consensus       170 d~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~  213 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQ  213 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999998653  33357899999999999999887

>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=96.40  E-value=0.0016  Score=52.22  Aligned_cols=22  Identities=5%  Similarity=0.034  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||+|+.+-+
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999999876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.39  E-value=0.0018  Score=52.09  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||++..+.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            46899999999999999997554

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.38  E-value=0.002  Score=58.85  Aligned_cols=46  Identities=15%  Similarity=0.167  Sum_probs=37.1

Q ss_pred             CcccccchhHHHHHHHHhcC----------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG----------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~----------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.|.+++...          .....-+-|+|.+|+|||+||+.+.+
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            56999999999999887320          11245678999999999999999987

>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=96.38  E-value=0.0021  Score=52.90  Aligned_cols=25  Identities=12%  Similarity=0.125  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-.+|+|+|+.|.|||||++.+..
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            3467999999999999999999876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.37  E-value=0.0017  Score=53.24  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|+|||||++.+..
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHh
Confidence            5899999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.36  E-value=0.002  Score=53.27  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+|+.|+|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999876

>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=96.35  E-value=0.003  Score=62.74  Aligned_cols=44  Identities=16%  Similarity=0.216  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|++...+.+.+.|....  ..-+-++|.+|+||||||+.+.+
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~--~~~vlL~G~~GtGKT~la~~la~  229 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccC--CCCeEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999988653  33456899999999999999887

>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=96.35  E-value=0.0026  Score=50.90  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|+|+.|+|||||++.+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            357899999999999999999875

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.34  E-value=0.0024  Score=55.65  Aligned_cols=46  Identities=24%  Similarity=0.237  Sum_probs=33.6

Q ss_pred             CcccccchhHHHHHHHHhc---C---------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE---G---------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~---------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++.|.++.+++|.+.+..   .         ..... +.++|++|+||||||+.+...
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHH
Confidence            4588899888888775431   1         11223 899999999999999999873

>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=96.34  E-value=0.002  Score=52.28  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|.|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.33  E-value=0.0036  Score=56.53  Aligned_cols=43  Identities=21%  Similarity=0.254  Sum_probs=32.3

Q ss_pred             cccchhHHHHHHHHhc--CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          162 VGLDDRMEELLDLLIE--GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~--~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      |+.+.-.+++++.+..  .......|.++|+.|+||||+++.+..
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHH
Confidence            4455666777777653  234467799999999999999998766

>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=96.33  E-value=0.0035  Score=55.40  Aligned_cols=45  Identities=13%  Similarity=0.058  Sum_probs=37.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+...+.|.+++..+. ...++-+.|++|+||||+|+.+.+
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~   70 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCH   70 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHH
Confidence            568999999999999998653 235677788899999999999987

>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=96.33  E-value=0.0035  Score=53.45  Aligned_cols=46  Identities=17%  Similarity=0.286  Sum_probs=33.5

Q ss_pred             CcccccchhHHHHHHHHhc--C---------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE--G---------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~--~---------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..+.++.+....  .         ..... +.|+|+.|+|||||++.+.+.
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g-~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCCCCHHHHHHHHHHH
Confidence            4688988777777665431  1         11123 889999999999999999983

>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=96.30  E-value=0.0024  Score=52.23  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|+|+|+.|+||||+++.+-.
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999876

>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=96.30  E-value=0.0052  Score=52.96  Aligned_cols=47  Identities=21%  Similarity=0.171  Sum_probs=35.4

Q ss_pred             CcccccchhHHHHHHH-------Hhc-CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDL-------LIE-GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~-------L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..++|.....+++...       +.. ......-+-|+|++|+||||||+.+.+.
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4578888877777763       221 2345677889999999999999999883

>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=96.29  E-value=0.002  Score=53.79  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|+|+.|+||||+++.+..
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998865

>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=96.29  E-value=0.0031  Score=58.73  Aligned_cols=47  Identities=17%  Similarity=0.235  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhc----------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..++.|.+.+..          .....+-+-++|++|+|||+||+.+.+.
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999887731          1123466789999999999999999983

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.29  E-value=0.002  Score=52.01  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.|.|+|+.|+||||+|+.+-.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999865

>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=96.28  E-value=0.0021  Score=52.31  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++|+|..|+|||||++.+...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.28  E-value=0.0021  Score=51.91  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||+|+.+.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999977

>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=96.28  E-value=0.0036  Score=55.47  Aligned_cols=37  Identities=24%  Similarity=0.192  Sum_probs=26.5

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+..++.........+-|+|++|+||||||+.+.+
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3344444443322456788999999999999999998

>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=96.28  E-value=0.0025  Score=52.57  Aligned_cols=25  Identities=12%  Similarity=0.158  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|+|+|+.|+|||||++.+..
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999976

>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=96.27  E-value=0.004  Score=58.19  Aligned_cols=47  Identities=17%  Similarity=0.108  Sum_probs=35.7

Q ss_pred             CcccccchhHHHHHHHH---hcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLL---IEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L---~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++.++.+..++   ..+....+-+-++|++|+|||+||+.+.+.
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            57999999888665544   334333355778999999999999999883

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.27  E-value=0.002  Score=52.60  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|+|.|+.|+||||+++.+.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999999876

>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=96.25  E-value=0.0025  Score=54.51  Aligned_cols=25  Identities=8%  Similarity=0.110  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|+|.|+.|+||||+|+.+-.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999998866

>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=96.24  E-value=0.0027  Score=51.44  Aligned_cols=23  Identities=9%  Similarity=0.118  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999876

>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=96.24  E-value=0.0022  Score=52.73  Aligned_cols=22  Identities=14%  Similarity=0.214  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|+|+.|+||||+++.+-.
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999865

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.23  E-value=0.0023  Score=50.94  Aligned_cols=25  Identities=12%  Similarity=0.234  Sum_probs=20.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|.|.|+.|+||||+++.+-+
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.22  E-value=0.0023  Score=52.43  Aligned_cols=23  Identities=9%  Similarity=0.208  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+|+|+|+.|+|||||++.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.20  E-value=0.0021  Score=50.67  Aligned_cols=25  Identities=8%  Similarity=0.044  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-..+.|+|..|+|||||++.+.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3568899999999999999999883

>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=96.20  E-value=0.0027  Score=52.34  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|+|+.|+||||+++.+-.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999965

>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=96.18  E-value=0.0024  Score=51.56  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||+++.+.+
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.18  E-value=0.0034  Score=54.44  Aligned_cols=47  Identities=17%  Similarity=0.258  Sum_probs=34.4

Q ss_pred             CCcccccchhHHHHHHHHhc--C---------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          158 NRNTVGLDDRMEELLDLLIE--G---------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~--~---------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|.++.++++.+....  .         ..... +.|+|+.|+|||||++.+.+.
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHH
Confidence            35689998887777665432  1         11123 889999999999999999983

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.18  E-value=0.0019  Score=53.18  Aligned_cols=23  Identities=9%  Similarity=0.159  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||||+.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998866

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.16  E-value=0.0027  Score=52.23  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|+|+.|+|||||++.+..
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999976

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.16  E-value=0.005  Score=51.18  Aligned_cols=26  Identities=15%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....+|.|+|.+|+|||||+..+...
T Consensus        36 ~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           36 HGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            35789999999999999999887663

>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=96.14  E-value=0.0027  Score=54.01  Aligned_cols=23  Identities=22%  Similarity=0.159  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|+|+.|+|||||++.+.+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999983

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.11  E-value=0.0047  Score=55.29  Aligned_cols=25  Identities=24%  Similarity=0.167  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+++|+|+.|+|||||++.+..
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            3578999999999999999998876

>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=96.11  E-value=0.0035  Score=59.19  Aligned_cols=46  Identities=11%  Similarity=0.130  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHHhcC-----------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG-----------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~-----------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+++|.+++...           .....-+-|+|.+|+|||+||+.+.+
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~  260 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN  260 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHH
Confidence            46899999999998877531           23345577999999999999999987

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.10  E-value=0.0033  Score=50.84  Aligned_cols=23  Identities=26%  Similarity=0.176  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.09  E-value=0.0023  Score=52.80  Aligned_cols=22  Identities=14%  Similarity=0.271  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5789999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.09  E-value=0.0031  Score=51.20  Aligned_cols=23  Identities=9%  Similarity=0.154  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999875

>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=96.09  E-value=0.0032  Score=52.27  Aligned_cols=24  Identities=8%  Similarity=0.231  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|+|+.|+|||||++.+..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~   30 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFK   30 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHh
Confidence            356899999999999999999976

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.09  E-value=0.0036  Score=51.37  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|.|.|+.|+||||+++.+.+
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999998876

>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=96.07  E-value=0.005  Score=55.75  Aligned_cols=46  Identities=11%  Similarity=0.107  Sum_probs=35.5

Q ss_pred             CcccccchhHHHHHHHHhc----------------------------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE----------------------------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----------------------------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.|...+..                            .......+-++|++|+||||||+.+.+
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHH
Confidence            4589999999988877721                            011234577999999999999999987

>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=96.06  E-value=0.0026  Score=51.16  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+++.+.+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45788999999999999998875

>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=96.04  E-value=0.012  Score=49.02  Aligned_cols=21  Identities=14%  Similarity=0.185  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|.|.|++|+||||.|+.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            678999999999999999987

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.04  E-value=0.0039  Score=51.71  Aligned_cols=39  Identities=23%  Similarity=0.221  Sum_probs=28.6

Q ss_pred             cchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          164 LDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++..+.+...+..  .+..+|.|+|.+|+|||||+..+..
T Consensus        14 ~~~~~~~~~~~~~~--~~~~~i~i~G~~g~GKTTl~~~l~~   52 (221)
T 2wsm_A           14 NKRLAEKNREALRE--SGTVAVNIMGAIGSGKTLLIERTIE   52 (221)
T ss_dssp             HHHHHHHHHHHHHH--HTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcc--cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            34455555554433  3478999999999999999988765

>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=96.04  E-value=0.0036  Score=50.75  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|.|+|+.|+||||+++.+-+
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998866

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.03  E-value=0.0036  Score=50.47  Aligned_cols=23  Identities=17%  Similarity=0.095  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+|.+.|+.|+||||+++.+.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999865

>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=96.03  E-value=0.012  Score=48.87  Aligned_cols=47  Identities=13%  Similarity=0.273  Sum_probs=31.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcccccc----ccCCeeEEEECCCCCCHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVK----HYFDYLAWIPAPYQYDPD  227 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~----~~F~~~~wV~vs~~~~~~  227 (290)
                      .-.+++|+|..|+|||||++.+.......    ..-...+|+.-...+...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~   74 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE   74 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHH
Confidence            45799999999999999999986521111    012347777765544443

>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=96.02  E-value=0.0039  Score=55.40  Aligned_cols=25  Identities=8%  Similarity=0.107  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-.+|+|+|..|+|||||++.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            4578999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.02  E-value=0.0026  Score=51.02  Aligned_cols=22  Identities=9%  Similarity=0.214  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|.|.|++|+||||+|+.+-.
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3689999999999999999876

>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=96.02  E-value=0.0034  Score=51.98  Aligned_cols=23  Identities=13%  Similarity=0.057  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999998864

>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=96.01  E-value=0.013  Score=49.04  Aligned_cols=49  Identities=10%  Similarity=0.097  Sum_probs=34.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~l  229 (290)
                      .-.++.|+|.+|+|||||++.+........    .-...+|++....++...+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            356899999999999999998876321111    1246788887776665544

>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=96.01  E-value=0.0025  Score=51.49  Aligned_cols=22  Identities=9%  Similarity=0.092  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|.|.|++|+||||+|+.+-.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999866

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.01  E-value=0.0056  Score=52.40  Aligned_cols=40  Identities=18%  Similarity=0.155  Sum_probs=29.2

Q ss_pred             chhHHHHHHHHhcC---CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          165 DDRMEELLDLLIEG---PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       165 e~~~~~L~~~L~~~---~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +...+.++..+..+   .....+|.++|++|+||||+|+.+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           12 KHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34445555555543   24467899999999999999999876

>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=96.00  E-value=0.0057  Score=52.08  Aligned_cols=38  Identities=13%  Similarity=-0.032  Sum_probs=27.1

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...++...+........+|.|.|+.|+||||+|+.+-+
T Consensus        14 ~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           14 LLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             HHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            33444444433234567899999999999999999865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.00  E-value=0.0042  Score=52.87  Aligned_cols=24  Identities=4%  Similarity=0.102  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|.|..|.|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998866

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0054  Score=56.87  Aligned_cols=46  Identities=22%  Similarity=0.212  Sum_probs=36.7

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.+-+
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            5689999999998886642           223345677999999999999999988

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.99  E-value=0.0038  Score=50.54  Aligned_cols=24  Identities=21%  Similarity=0.109  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|.|.|+.|+||||+++.+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            457899999999999999999876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.99  E-value=0.0027  Score=52.39  Aligned_cols=24  Identities=8%  Similarity=0.272  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.|+|+.|+|||||++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            356889999999999999999876

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.97  E-value=0.0073  Score=54.49  Aligned_cols=37  Identities=19%  Similarity=0.129  Sum_probs=28.1

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+.+.+.....+..+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            4455555554445688999999999999999988754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.97  E-value=0.004  Score=51.13  Aligned_cols=23  Identities=13%  Similarity=-0.002  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999999999977

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.97  E-value=0.0038  Score=53.57  Aligned_cols=22  Identities=14%  Similarity=0.042  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|+|+.|+||||||+.+..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            5789999999999999998854

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.95  E-value=0.0036  Score=53.65  Aligned_cols=22  Identities=14%  Similarity=0.154  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -.+|+|+|+.|+|||||++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4699999999999999999887

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.95  E-value=0.0041  Score=55.30  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+.+||+|.|-|||||||.+-.+-
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA   69 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLS   69 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHH
Confidence            357999999999999999887653

>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=95.94  E-value=0.0061  Score=57.34  Aligned_cols=47  Identities=15%  Similarity=0.226  Sum_probs=35.1

Q ss_pred             CcccccchhHHHHHHHHhc--C--------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIE--G--------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~--~--------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++.+++|.+.+..  .        -.-.+-+-++|++|+||||||+.+.+.
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4699999988888776532  1        111233679999999999999999983

>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=95.94  E-value=0.0043  Score=53.40  Aligned_cols=23  Identities=13%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            56899999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.93  E-value=0.0036  Score=50.94  Aligned_cols=23  Identities=13%  Similarity=0.164  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=95.93  E-value=0.0042  Score=50.12  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=95.93  E-value=0.0039  Score=50.37  Aligned_cols=24  Identities=13%  Similarity=0.080  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+++|+|..|+|||||+..+..
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999887

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.91  E-value=0.0032  Score=50.56  Aligned_cols=23  Identities=17%  Similarity=0.173  Sum_probs=16.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+|+.+.+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=95.90  E-value=0.0035  Score=51.44  Aligned_cols=21  Identities=14%  Similarity=0.284  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|+|+.|+|||||++.+..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.89  E-value=0.0046  Score=54.87  Aligned_cols=42  Identities=21%  Similarity=0.165  Sum_probs=35.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.+...+..+.    -+-++|.+|+|||+||+.+.+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~----~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGG----HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC----CEEEESCCCHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcCC----eEEEECCCCCcHHHHHHHHHH
Confidence            358999999988888887642    466899999999999999877

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.89  E-value=0.004  Score=50.35  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|+.|+||||+++.+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999977

>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=95.89  E-value=0.0033  Score=50.02  Aligned_cols=22  Identities=14%  Similarity=0.125  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||+|+.+-+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999876

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.89  E-value=0.0041  Score=49.24  Aligned_cols=21  Identities=5%  Similarity=0.004  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|+.|+||||+|+.+-+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999876

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.006  Score=56.66  Aligned_cols=46  Identities=22%  Similarity=0.316  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.|.++.+++|.+.+..           +-...+=|-++|++|+|||+||+.+-+
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHH
Confidence            4689999999998876431           123356677899999999999999988

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.86  E-value=0.0067  Score=56.38  Aligned_cols=46  Identities=20%  Similarity=0.234  Sum_probs=36.4

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.+-+
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            4688999999888876642           123356677899999999999999988

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.86  E-value=0.0095  Score=53.06  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+|.+|+||||++..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999988765

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.86  E-value=0.0085  Score=52.45  Aligned_cols=25  Identities=12%  Similarity=0.187  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|-|.|++|+||||||+.+.+
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999999976

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.86  E-value=0.0033  Score=52.62  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45799999999999999999876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.86  E-value=0.0074  Score=53.80  Aligned_cols=25  Identities=12%  Similarity=0.138  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|+|.|..|+|||||++.+..
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999998865

>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=95.85  E-value=0.0051  Score=50.43  Aligned_cols=24  Identities=17%  Similarity=0.097  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.|.|+.|+||||+|+.+-.
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999999865

>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=95.82  E-value=0.0055  Score=48.83  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-.+++++|..|.|||||++.+..
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3456999999999999999998876

>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=95.81  E-value=0.0049  Score=57.36  Aligned_cols=29  Identities=28%  Similarity=0.311  Sum_probs=24.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccC
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYF  212 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F  212 (290)
                      ...+.|+|++|+||||||+.+.+  .....|
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~--~l~~~~  158 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNE  158 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH--HHHHHC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHhC
Confidence            67788999999999999999998  444433

>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=95.81  E-value=0.0052  Score=50.59  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-.+|+|.|+.|+||||+++.+-+
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999876

>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=95.77  E-value=0.0049  Score=54.55  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+++|+|+.|+|||||++.+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999998875

>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=95.77  E-value=0.0024  Score=52.72  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|+|..|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            789999999999999999865

>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=95.76  E-value=0.006  Score=54.24  Aligned_cols=45  Identities=18%  Similarity=0.152  Sum_probs=32.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.+..+..+...+....  ..-+-++|.+|+|||+||+.+.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~--~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC--CceEEEECCCCccHHHHHHHHHHh
Confidence            358999886665544444322  222779999999999999999873

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.75  E-value=0.01  Score=56.16  Aligned_cols=43  Identities=14%  Similarity=0.132  Sum_probs=35.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..++|.+..++.+...+..+.    -+-++|++|+|||+||+.+.+.
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~----~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC----EEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhhHHHHHHHHHHHHHHhcCC----eeEeecCchHHHHHHHHHHHHH
Confidence            347899998888888777543    4668999999999999999983

>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=95.74  E-value=0.0063  Score=50.55  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|.|+.|+||||+++.+-.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>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=95.73  E-value=0.0061  Score=53.14  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=21.5

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ....+|+|.|+.|+||||+|+.+-
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            346799999999999999999886

>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=95.73  E-value=0.0055  Score=50.44  Aligned_cols=23  Identities=4%  Similarity=-0.022  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+++.+.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.71  E-value=0.0065  Score=55.82  Aligned_cols=46  Identities=20%  Similarity=0.239  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.+-+
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHH
Confidence            4688999999888876532           223345567899999999999999988

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.70  E-value=0.0046  Score=50.78  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++|+|..|+|||||++.+..
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            689999999999999998876

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.68  E-value=0.0051  Score=53.96  Aligned_cols=25  Identities=12%  Similarity=0.114  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....+-++|++|+|||+||+.+.+.
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3567788999999999999999983

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.66  E-value=0.0054  Score=50.47  Aligned_cols=23  Identities=4%  Similarity=-0.171  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|.|+.|+||||+++.+.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999976

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.66  E-value=0.0058  Score=50.97  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|.|||||++.+..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3799999999999999999875

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.66  E-value=0.0059  Score=52.08  Aligned_cols=24  Identities=17%  Similarity=0.241  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .. .+++|+|+.|.|||||.+.+..
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhC
Confidence            45 7999999999999999999976

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.66  E-value=0.022  Score=46.87  Aligned_cols=49  Identities=8%  Similarity=0.038  Sum_probs=31.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      .|+|=|.-|+||||.++.+.+  ..+.+-..+++..-+..-...+.+++++
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~--~L~~~g~~v~~treP~~t~~~~~ir~~l   50 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQ--YLEKRGKKVILKREPGGTETGEKIRKIL   50 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEEESSCSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH--HHHHCCCcEEEEECCCCCcHHHHHHHHh
Confidence            477889999999999999988  4443333344444444333445555554

>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=95.65  E-value=0.0059  Score=51.89  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999999975

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.64  E-value=0.0056  Score=51.30  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|+.|+||||+|+.+-+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=95.63  E-value=0.0073  Score=48.49  Aligned_cols=23  Identities=17%  Similarity=0.044  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+|.|.|+.|+||||+++.+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999999876

>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=95.62  E-value=0.0057  Score=50.62  Aligned_cols=24  Identities=4%  Similarity=0.227  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|.|+|+.|+|||||++.+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            457899999999999999999886

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.62  E-value=0.0059  Score=51.47  Aligned_cols=23  Identities=17%  Similarity=0.062  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999976

>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=95.62  E-value=0.0063  Score=50.68  Aligned_cols=23  Identities=9%  Similarity=0.071  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|+.|+||||+|+.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>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=95.61  E-value=0.006  Score=51.30  Aligned_cols=24  Identities=13%  Similarity=0.156  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            356899999999999999999987

>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=95.61  E-value=0.006  Score=49.86  Aligned_cols=23  Identities=9%  Similarity=-0.080  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+|.|.|+.|+||||+++.+-+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999999987

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.61  E-value=0.0082  Score=56.02  Aligned_cols=46  Identities=20%  Similarity=0.234  Sum_probs=36.2

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.+-+
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~  265 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN  265 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHh
Confidence            4688999999998876431           223456677999999999999999988

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.60  E-value=0.0074  Score=50.72  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=23.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.+||-|.|++|+||||.|+.+.+.
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56889999999999999999998873

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.60  E-value=0.0072  Score=53.40  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|+|||||++.+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            357999999999999999998876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.59  E-value=0.0032  Score=50.90  Aligned_cols=23  Identities=13%  Similarity=0.182  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+++|+|..|+|||||++.+..
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.57  E-value=0.004  Score=52.35  Aligned_cols=22  Identities=14%  Similarity=0.173  Sum_probs=16.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -.+++|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999988

>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=95.55  E-value=0.0075  Score=53.30  Aligned_cols=25  Identities=12%  Similarity=0.130  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|+|+|..|+|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999998876

>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=95.54  E-value=0.0081  Score=49.72  Aligned_cols=24  Identities=8%  Similarity=-0.003  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|.|.|+.|+||||+++.+..
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.54  E-value=0.0069  Score=50.13  Aligned_cols=21  Identities=10%  Similarity=0.150  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|+.|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999865

>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=95.53  E-value=0.01  Score=55.30  Aligned_cols=46  Identities=13%  Similarity=0.185  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHHhcC------------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG------------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~------------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.++.++.|...+...            +....-|-++|++|+||||+|+.+-.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~   72 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999987776321            11245578999999999999999887

>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=95.53  E-value=0.0069  Score=51.51  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999987

>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=95.53  E-value=0.013  Score=55.26  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|+|+|..|+|||||++.+..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            467999999999999999999876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.49  E-value=0.0071  Score=52.25  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

>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=95.49  E-value=0.007  Score=53.31  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+++|.+|+||||++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~  127 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAA  127 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988765

>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=95.49  E-value=0.0073  Score=51.43  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999976

>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=95.47  E-value=0.0075  Score=49.33  Aligned_cols=21  Identities=14%  Similarity=0.132  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|+|.|+.|+||||+++.+-.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999866

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.46  E-value=0.014  Score=55.09  Aligned_cols=48  Identities=17%  Similarity=0.220  Sum_probs=35.2

Q ss_pred             CCcccccchhHHHHHHHHhc--C-----C---CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          158 NRNTVGLDDRMEELLDLLIE--G-----P---TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       158 ~~~~vG~e~~~~~L~~~L~~--~-----~---~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.+++|.++.+.++.+....  +     +   .-.+=+.|+|++|+||||||+.+.+.
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            35699999888887776532  1     0   01123889999999999999999873

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.45  E-value=0.01  Score=52.43  Aligned_cols=52  Identities=12%  Similarity=0.144  Sum_probs=32.7

Q ss_pred             hHHHHHHHHhcCCC-CcEEEEEEcCCCCChhHHHHHHhcccccc-ccCCeeEEEEC
Q 047336          167 RMEELLDLLIEGPT-QLSVVAILDSIGLDKTAFTAEAYNSSYVK-HYFDYLAWIPA  220 (290)
Q Consensus       167 ~~~~L~~~L~~~~~-~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~-~~F~~~~wV~v  220 (290)
                      ..+.+.+++..... ....+-++|..|+|||+||+.+.+  ... ..-....++++
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~--~~~~~~g~~v~~~~~  189 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAH--ELSEKKGVSTTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHH--HHHHHSCCCEEEEEH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHH--HHHHhcCCcEEEEEH
Confidence            34445556654221 245677999999999999999998  333 22223455553

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.45  E-value=0.014  Score=54.28  Aligned_cols=38  Identities=21%  Similarity=0.128  Sum_probs=28.0

Q ss_pred             hHHHHHHHHhcC-------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          167 RMEELLDLLIEG-------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       167 ~~~~L~~~L~~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++|.++|...       .....+|.++|.+|+||||++-.+-.
T Consensus        78 ~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           78 VRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             HHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            455666666532       13478999999999999999877764

>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=95.45  E-value=0.0077  Score=49.87  Aligned_cols=21  Identities=10%  Similarity=0.075  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|+.|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999865

>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=95.44  E-value=0.0075  Score=52.56  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||++.+..
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            45899999999999999999975

>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=95.44  E-value=0.012  Score=52.43  Aligned_cols=53  Identities=9%  Similarity=-0.024  Sum_probs=35.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC--CCC-----CCHHHHHHHHHHHhhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA--PYQ-----YDPDQILDTVTWLSRR  239 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v--s~~-----~~~~~ll~~Il~~l~~  239 (290)
                      -+++-|+|++|+||||||..+...     .-..++|+++  +..     .+...++..+.+.+..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~  182 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ  182 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhh
Confidence            456789999999999999998763     1123455555  111     4567777766666543

>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=95.43  E-value=0.0077  Score=51.83  Aligned_cols=23  Identities=17%  Similarity=0.141  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999976

>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=95.43  E-value=0.0084  Score=51.13  Aligned_cols=24  Identities=17%  Similarity=0.102  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .=.+++|+|..|.|||||.+.+..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999976

>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=95.43  E-value=0.041  Score=49.30  Aligned_cols=54  Identities=13%  Similarity=0.233  Sum_probs=38.9

Q ss_pred             CCCCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHH
Q 047336          178 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       178 ~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      +=+.-.++-|+|.+|+||||||..+..+.....    .=..++|++....|+...+.+
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~  175 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD  175 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            334567999999999999999998776322211    124689999988888776543

>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=95.43  E-value=0.0077  Score=48.79  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++++|+|..|+|||||++.+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHH
Confidence            67999999999999999999887

>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=95.43  E-value=0.013  Score=55.96  Aligned_cols=46  Identities=17%  Similarity=0.292  Sum_probs=36.5

Q ss_pred             CcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++-++.+.+.+.-    ......++.++|++|+||||||+.+..
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4589999888888765542    223466899999999999999999987

>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=95.41  E-value=0.008  Score=51.50  Aligned_cols=23  Identities=17%  Similarity=0.125  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999987

>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=95.41  E-value=0.0081  Score=50.79  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999987

>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=95.40  E-value=0.024  Score=49.41  Aligned_cols=53  Identities=9%  Similarity=0.075  Sum_probs=34.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCC-eeEEEECCCCCCHHHHHHHHHHHh
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFD-YLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~-~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      .-.+++|+|.+|+|||||++.+...  +...-. .++|++...  +...+.+.++...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~--~~~~~G~~v~~~~~e~--~~~~~~~r~~~~~   87 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQ--WGTAMGKKVGLAMLEE--SVEETAEDLIGLH   87 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHH--HHHTSCCCEEEEESSS--CHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH--HHHHcCCeEEEEeCcC--CHHHHHHHHHHHH
Confidence            3468999999999999999988763  222223 455666543  4455555555443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.38  E-value=0.007  Score=50.46  Aligned_cols=23  Identities=13%  Similarity=-0.142  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|+.|+||||+++.+.+
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999876

>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=95.37  E-value=0.0083  Score=51.93  Aligned_cols=24  Identities=21%  Similarity=0.216  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|.|||||.+.+..
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHc
Confidence            346899999999999999999976

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.37  E-value=0.0064  Score=52.26  Aligned_cols=23  Identities=13%  Similarity=0.057  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+|.|+|+.|+||||+++.+-.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999865

>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=95.35  E-value=0.0086  Score=51.27  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999976

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.35  E-value=0.0098  Score=50.62  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....++.+.|.||+|||||+..+..
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHH
Confidence            3578889999999999999998864

>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=95.33  E-value=0.0072  Score=50.64  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35789999999999999999976

>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=95.33  E-value=0.01  Score=52.54  Aligned_cols=24  Identities=17%  Similarity=0.130  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+|.+|+||||++..+..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHH
Confidence            468999999999999999988876

>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=95.32  E-value=0.029  Score=49.84  Aligned_cols=51  Identities=10%  Similarity=0.087  Sum_probs=36.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcccccccc----CCeeEEEECCCCCCHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHY----FDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~----F~~~~wV~vs~~~~~~~ll~  231 (290)
                      .-.++-|+|.+|+||||||..+..+......    =..++|++....|+...+.+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~  160 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN  160 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH
Confidence            3568999999999999999887763221111    23689999988887776553

>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=95.31  E-value=0.0086  Score=51.87  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||++.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999999976

>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=95.31  E-value=0.0089  Score=51.50  Aligned_cols=23  Identities=13%  Similarity=0.083  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

>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=95.31  E-value=0.0089  Score=51.78  Aligned_cols=23  Identities=26%  Similarity=0.245  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999999987

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.31  E-value=0.0089  Score=51.92  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999976

>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=95.31  E-value=0.018  Score=48.58  Aligned_cols=25  Identities=20%  Similarity=0.274  Sum_probs=22.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-..|.|.|+.|+||||+++.+.+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999884

>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=95.30  E-value=0.033  Score=50.08  Aligned_cols=49  Identities=12%  Similarity=0.250  Sum_probs=33.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccC----CeeEEEECCCCCCHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF----DYLAWIPAPYQYDPDQ  228 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F----~~~~wV~vs~~~~~~~  228 (290)
                      +.-.++.|+|..|+|||||++.+..........    ..++||+-...+....
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~  181 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER  181 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH
Confidence            456899999999999999999887632111111    2458888766654443

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.30  E-value=0.009  Score=51.53  Aligned_cols=23  Identities=17%  Similarity=0.271  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999999976

>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=95.29  E-value=0.017  Score=50.82  Aligned_cols=23  Identities=17%  Similarity=0.153  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+++|.+|+||||++..+..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999988765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.29  E-value=0.011  Score=45.71  Aligned_cols=23  Identities=13%  Similarity=0.182  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.|.|+|.+|+|||||+..+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999988764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.27  E-value=0.011  Score=53.66  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+++|+|..|+|||||++.+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            457999999999999999998876

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.26  E-value=0.015  Score=46.63  Aligned_cols=26  Identities=15%  Similarity=0.068  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .....|.|+|.+|+|||||.+.+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            45677899999999999999998864

>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=95.25  E-value=0.0093  Score=48.41  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            568899999999999999988763

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.24  E-value=0.0096  Score=51.51  Aligned_cols=23  Identities=9%  Similarity=0.070  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999976

>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=95.24  E-value=0.016  Score=53.85  Aligned_cols=24  Identities=13%  Similarity=0.097  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.++|.+|+||||++..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~  119 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAY  119 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999887765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.22  E-value=0.0084  Score=49.92  Aligned_cols=23  Identities=9%  Similarity=-0.013  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|+.|+||||+|+.+-+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35788999999999999999866

>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=95.22  E-value=0.0099  Score=50.97  Aligned_cols=23  Identities=13%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999999876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.21  E-value=0.01  Score=51.01  Aligned_cols=23  Identities=17%  Similarity=0.223  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999999986

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.21  E-value=0.019  Score=57.02  Aligned_cols=46  Identities=13%  Similarity=0.247  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcC-----C--CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEG-----P--TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~-----~--~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.+.+.+...     .  .....+-++|++|+|||+||+.+.+
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~  543 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAE  543 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999888642     1  2234788999999999999999987

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.18  E-value=0.01  Score=51.81  Aligned_cols=23  Identities=13%  Similarity=-0.061  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||.+.+..
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999976

>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=95.18  E-value=0.01  Score=50.39  Aligned_cols=23  Identities=22%  Similarity=0.177  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|.|+.|+||||+++.+-.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>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=95.17  E-value=0.029  Score=55.98  Aligned_cols=76  Identities=11%  Similarity=0.102  Sum_probs=49.8

Q ss_pred             CcccccchhHHHHHHHHhc---C--------CCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEEC----CCC
Q 047336          159 RNTVGLDDRMEELLDLLIE---G--------PTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA----PYQ  223 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~--------~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v----s~~  223 (290)
                      +++.|.++.+++|.+++.-   .        -...+-|-++|++|+|||+||+.|.+.  ...+|   +.|..    +..
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~e--lg~~~---~~v~~~~l~sk~  278 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPEIMSKL  278 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTT--TTCEE---EEEEHHHHHSSC
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH--hCCeE---EEEEhHHhhccc
Confidence            4688999998888887531   1        123566789999999999999999983  33333   33332    333


Q ss_pred             CC-HHHHHHHHHHHhhh
Q 047336          224 YD-PDQILDTVTWLSRR  239 (290)
Q Consensus       224 ~~-~~~ll~~Il~~l~~  239 (290)
                      .. ....++.+++....
T Consensus       279 ~gese~~lr~lF~~A~~  295 (806)
T 3cf2_A          279 AGESESNLRKAFEEAEK  295 (806)
T ss_dssp             TTHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHH
Confidence            32 34556777666543

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.16  E-value=0.016  Score=53.54  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=35.9

Q ss_pred             CcccccchhHHHHHHHHhc-----------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++.|.++.+++|.+.+.-           +-...+=|-++|++|+|||+||+.+-+
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHH
Confidence            4578899998888876532           123346677999999999999999988

>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=95.15  E-value=0.013  Score=46.15  Aligned_cols=23  Identities=9%  Similarity=0.137  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..|+|+|.+|+|||||.+.+.+.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999988763

>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=95.15  E-value=0.0092  Score=50.21  Aligned_cols=25  Identities=32%  Similarity=0.256  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-.+|+|.|..|+|||||++.+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            3457999999999999999999987

>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=95.15  E-value=0.019  Score=52.37  Aligned_cols=35  Identities=14%  Similarity=0.151  Sum_probs=26.4

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.+-+..+-..-.+++|+|+.|.|||||++.+..
T Consensus       157 ~~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          157 DFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             HHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHhcccccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            34444433434567999999999999999999986

>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=95.15  E-value=0.014  Score=54.13  Aligned_cols=38  Identities=29%  Similarity=0.308  Sum_probs=26.9

Q ss_pred             hHHHHHHHHhcCC-------CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          167 RMEELLDLLIEGP-------TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       167 ~~~~L~~~L~~~~-------~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+++....       ....+|+|+|.+|+||||++..+-.
T Consensus        77 ~~~~l~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           77 VYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             HHHHHHHHHCCSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHH
T ss_pred             HHHHHHHHhCCCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3455566554321       2356999999999999999987765

>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=95.14  E-value=0.039  Score=48.76  Aligned_cols=52  Identities=15%  Similarity=0.176  Sum_probs=38.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccc---------cC-----CeeEEEECCCCCCHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKH---------YF-----DYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~---------~F-----~~~~wV~vs~~~~~~~ll~  231 (290)
                      +.-.++-|.|.+|+||||||..+..+.....         ..     ..++|++...+|+...+.+
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~  161 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ  161 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH
Confidence            3457899999999999999988765322211         11     4689999998888776654

>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=95.13  E-value=0.011  Score=47.56  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|+|+|.+|+|||||.+.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.10  E-value=0.011  Score=49.02  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++.|+|..|+|||||++.+..
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999998875

>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=95.08  E-value=0.011  Score=48.89  Aligned_cols=21  Identities=10%  Similarity=-0.032  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|+.|+||||+|+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999876

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.06  E-value=0.012  Score=52.25  Aligned_cols=25  Identities=20%  Similarity=0.308  Sum_probs=22.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +++++.|+|+-|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4789999999999999999999853

>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=95.04  E-value=0.012  Score=47.90  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+|+|..|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999988764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.03  E-value=0.013  Score=49.35  Aligned_cols=25  Identities=12%  Similarity=0.011  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|+|.|+.|+||||+++.+-.
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998865

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.03  E-value=0.012  Score=49.23  Aligned_cols=21  Identities=14%  Similarity=0.067  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|+.|+||||+|+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999876

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.03  E-value=0.062  Score=47.48  Aligned_cols=56  Identities=14%  Similarity=0.081  Sum_probs=37.6

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWL  236 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~  236 (290)
                      .+=..-.++-|.|.+|+||||||..+..+.... . ..++|++.-  -+...+...++..
T Consensus        63 gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~-g-~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           63 YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN-D-DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTT-T-CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHc-C-CeEEEEECC--CCHHHHHHHHHHH
Confidence            332345688889999999999998876532222 2 567787765  4566676666654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.01  E-value=0.0087  Score=52.51  Aligned_cols=24  Identities=8%  Similarity=0.171  Sum_probs=18.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..+|+|.|..|+||||+|+.+-+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998876

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.99  E-value=0.014  Score=50.43  Aligned_cols=24  Identities=13%  Similarity=0.288  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|+|||||++.+..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHH
Confidence            457999999999999999998865

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.99  E-value=0.032  Score=53.97  Aligned_cols=42  Identities=12%  Similarity=0.175  Sum_probs=35.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..++.+...+..+    ..+.|+|..|+||||||+.+..
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhc
Confidence            45899888887777766654    3788999999999999999987

>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=94.99  E-value=0.013  Score=51.87  Aligned_cols=25  Identities=8%  Similarity=0.138  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.-.+++|+|+.|.|||||++.+..
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhh
Confidence            3457899999999999999999875

>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=94.96  E-value=0.034  Score=50.25  Aligned_cols=45  Identities=22%  Similarity=0.238  Sum_probs=31.5

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDP  226 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~  226 (290)
                      +.-.++.|.|.+|+|||||+..+....  ...=..++||+....++.
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~--~~~gg~VlyId~E~s~~~  103 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEA--QKMGGVAAFIDAEHALDP  103 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEecccccch
Confidence            446799999999999999999887632  211124567776655543

>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=94.95  E-value=0.013  Score=45.35  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|.+|+|||||+..+.+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.94  E-value=0.016  Score=46.29  Aligned_cols=24  Identities=8%  Similarity=0.102  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+++|.+|+|||||.+.+.+.
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999998763

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.94  E-value=0.012  Score=50.95  Aligned_cols=21  Identities=14%  Similarity=0.412  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|+|..|+|||||.+.++.
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            579999999999999999886

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.93  E-value=0.024  Score=45.54  Aligned_cols=26  Identities=12%  Similarity=0.040  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .....|.|+|.+|+|||||...+.+.
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34568899999999999999988764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.92  E-value=0.014  Score=52.37  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|.|+.|+||||||+.+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            5899999999999999998876

>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=94.92  E-value=0.015  Score=48.97  Aligned_cols=23  Identities=13%  Similarity=0.040  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|.|+.|+||||+|+.+-+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>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=94.89  E-value=0.059  Score=49.43  Aligned_cols=50  Identities=8%  Similarity=0.065  Sum_probs=33.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~l  229 (290)
                      ..-.++.|+|..|+|||||+..+.-.-....    .-..++|++....++...+
T Consensus       176 ~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl  229 (400)
T 3lda_A          176 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL  229 (400)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH
Confidence            3456899999999999999996642111111    2245888887777766554

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.89  E-value=0.014  Score=50.49  Aligned_cols=22  Identities=27%  Similarity=0.237  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|..|.|||||.+.+..
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999975

>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=94.87  E-value=0.015  Score=50.73  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999876

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=94.83  E-value=0.03  Score=50.11  Aligned_cols=35  Identities=17%  Similarity=0.156  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.+-+.....+..+|+|+|.+|+|||||+..+..
T Consensus        44 ~~~~~l~~~~~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           44 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHhCCcccCCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            34433333335688999999999999999998853

>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=94.83  E-value=0.015  Score=45.63  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||.+.+.+.
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            456889999999999999988764

>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=94.80  E-value=0.023  Score=51.17  Aligned_cols=45  Identities=22%  Similarity=0.191  Sum_probs=31.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDP  226 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~  226 (290)
                      +.-.++.|.|.+|+||||||..+....  ...=..++|++....++.
T Consensus        59 ~~G~iv~I~G~pGsGKTtLal~la~~~--~~~g~~vlyi~~E~~~~~  103 (349)
T 2zr9_A           59 PRGRVIEIYGPESSGKTTVALHAVANA--QAAGGIAAFIDAEHALDP  103 (349)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEECCCCcCH
Confidence            345689999999999999998887522  211135677777666553

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.80  E-value=0.025  Score=53.51  Aligned_cols=37  Identities=22%  Similarity=0.275  Sum_probs=25.8

Q ss_pred             HHHHHHHHhcC-------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEG-------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.++|...       ..+..+|+|+|.+|+||||++..+-.
T Consensus        80 ~~eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~  123 (504)
T 2j37_W           80 FKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAY  123 (504)
T ss_dssp             HHHHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45555555432       13467999999999999999987763

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.79  E-value=0.029  Score=50.19  Aligned_cols=34  Identities=18%  Similarity=0.200  Sum_probs=26.0

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHh
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+.+-+.-.-.+-.+++|+|..|+|||||.+.+.
T Consensus        43 ~~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           43 DLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             HHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHH
T ss_pred             HHHHhCCcccCCCeEEEEECCCCCCHHHHHHHHH
Confidence            3444444333457899999999999999999986

>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=94.75  E-value=0.028  Score=52.25  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..||.++|.+|+||||++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            478999999999999998877754

>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=94.74  E-value=0.016  Score=44.93  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999988754

>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=94.74  E-value=0.02  Score=44.54  Aligned_cols=24  Identities=4%  Similarity=0.090  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||+..+.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999988763

>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=94.73  E-value=0.014  Score=50.52  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.++.|+|.+|+|||||+..+..
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999998875

>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=94.72  E-value=0.016  Score=46.44  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -.|.++|.+|+|||||+..+.+.
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999988764

>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=94.72  E-value=0.018  Score=50.57  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+|.+|+||||++..+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~  120 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999998876

>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=94.70  E-value=0.016  Score=50.86  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||.+.+..
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999999986

>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=94.69  E-value=0.011  Score=52.24  Aligned_cols=24  Identities=13%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|..|.|||||++.+..
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            356899999999999999999975

>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=94.69  E-value=0.016  Score=46.53  Aligned_cols=23  Identities=13%  Similarity=-0.146  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|.|+|.+|+|||||++.+.+
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999988875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.67  E-value=0.027  Score=44.38  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=21.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+...|.|+|.+|+|||||...+.+
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3466789999999999999998865

>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=94.64  E-value=0.017  Score=45.02  Aligned_cols=21  Identities=24%  Similarity=0.238  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|.+|+|||||.+.+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998865

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.64  E-value=0.019  Score=44.78  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999988763

>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=94.63  E-value=0.018  Score=44.76  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999988764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.60  E-value=0.029  Score=46.75  Aligned_cols=36  Identities=11%  Similarity=0.135  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|..++.. -++..-+-|+|++|+||||+|..+.+
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHH
Confidence            4555555543 33345689999999999998877766

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.57  E-value=0.022  Score=44.88  Aligned_cols=26  Identities=15%  Similarity=0.254  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....-|.|+|.+|+|||||...+.++
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999988764

>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=94.55  E-value=0.019  Score=44.76  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999988764

>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=94.55  E-value=0.057  Score=44.99  Aligned_cols=24  Identities=13%  Similarity=-0.036  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -..|.|-|+.|+||||+++.+.+.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468899999999999999999873

>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=94.54  E-value=0.019  Score=44.65  Aligned_cols=22  Identities=9%  Similarity=0.203  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|..|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999888654

>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=94.54  E-value=0.022  Score=45.82  Aligned_cols=25  Identities=20%  Similarity=0.306  Sum_probs=21.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....|.|+|..|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4677899999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.54  E-value=0.023  Score=45.47  Aligned_cols=26  Identities=15%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ....|.|+|..|+|||||...+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            35678899999999999999887753

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.52  E-value=0.021  Score=48.18  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|.|.|..|+||||+++.+.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            467999999999999999999873

>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=94.49  E-value=0.024  Score=44.26  Aligned_cols=24  Identities=17%  Similarity=0.093  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999888754

>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=94.49  E-value=0.033  Score=50.27  Aligned_cols=45  Identities=22%  Similarity=0.196  Sum_probs=32.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDP  226 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~  226 (290)
                      +.-.++-|.|.+|+||||||..+....  ...=..++|++....++.
T Consensus        61 ~~G~ii~I~G~pGsGKTtLal~la~~~--~~~g~~vlyid~E~s~~~  105 (356)
T 1u94_A           61 PMGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDP  105 (356)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEeCCCCccH
Confidence            345688999999999999998876532  222235788888666653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.48  E-value=0.021  Score=50.90  Aligned_cols=22  Identities=9%  Similarity=0.188  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|+|+.|+||||||+.+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998876

>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=94.47  E-value=0.021  Score=44.28  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999887653

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=94.47  E-value=0.021  Score=52.62  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+++|+|..|+|||||.+.+..
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhC
Confidence            3467999999999999999999987

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.46  E-value=0.021  Score=48.83  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|+|.|-||+||||+|-.+-.
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~   23 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHH
Confidence            5888899999999999977654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.44  E-value=0.029  Score=46.90  Aligned_cols=40  Identities=15%  Similarity=0.125  Sum_probs=27.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCC
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      .-.++.|.|.+|+||||||..+.... . ..=..++|++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~-~-~~~~~v~~~~~e~   61 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNG-L-KMGEPGIYVALEE   61 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHH-H-HTTCCEEEEESSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-H-hcCCeEEEEEccC
Confidence            34689999999999999987665421 1 1113467777554

>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=94.42  E-value=0.027  Score=44.01  Aligned_cols=23  Identities=13%  Similarity=0.205  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +--|.|+|.+|+|||||...+.+
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHh
Confidence            34578999999999999998853

>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=94.42  E-value=0.024  Score=46.57  Aligned_cols=26  Identities=12%  Similarity=0.040  Sum_probs=22.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .....|.|+|.+|+|||||+..+.+.
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34667889999999999999988764

>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=94.42  E-value=0.021  Score=45.44  Aligned_cols=23  Identities=13%  Similarity=0.043  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999998764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.41  E-value=0.025  Score=50.64  Aligned_cols=25  Identities=8%  Similarity=0.264  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +..+|.|+|+.|+||||||..+-..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999998773

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.40  E-value=0.025  Score=50.89  Aligned_cols=25  Identities=16%  Similarity=0.056  Sum_probs=22.2

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ....+|+|+|.+|+|||||...+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            3478999999999999999998875

>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=94.38  E-value=0.021  Score=51.74  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHhc
Confidence            46899999999999999999976

>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=94.37  E-value=0.021  Score=45.66  Aligned_cols=25  Identities=12%  Similarity=0.032  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|.+|+|||||++.+.++
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999988654

>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=94.37  E-value=0.023  Score=52.42  Aligned_cols=26  Identities=27%  Similarity=0.272  Sum_probs=22.7

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....+|.|+|++|+||||+|+.+...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            35689999999999999999998763

>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=94.37  E-value=0.027  Score=44.43  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||...+.++
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999887653

>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=94.36  E-value=0.027  Score=55.85  Aligned_cols=46  Identities=20%  Similarity=0.259  Sum_probs=36.6

Q ss_pred             CcccccchhHHHHHHHHhc---C----CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE---G----PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~----~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.+..++.|...+..   +    ......+-++|++|+|||+||+.+.+
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~  510 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK  510 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence            4588999999888887753   1    12345788999999999999999987

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.36  E-value=0.024  Score=49.17  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=19.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|+|.|-||+||||+|-.+-.
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~   24 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHH
Confidence            47899999999999999987754

>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=94.34  E-value=0.022  Score=44.81  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999988653

>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=94.33  E-value=0.016  Score=47.30  Aligned_cols=25  Identities=16%  Similarity=-0.029  Sum_probs=21.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-..|+|+|..|+|||||.+.+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999988764

>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=94.33  E-value=0.026  Score=50.12  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.|+|+.|+||||||..+..
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=94.32  E-value=0.022  Score=51.56  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            45899999999999999999876

>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=94.32  E-value=0.023  Score=44.18  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=19.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|.|+|..|+|||||...+.+
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHc
Confidence            34678999999999999988875

>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=94.31  E-value=0.023  Score=44.33  Aligned_cols=24  Identities=8%  Similarity=0.264  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.+.
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            345789999999999999888653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.30  E-value=0.025  Score=44.57  Aligned_cols=24  Identities=17%  Similarity=0.069  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999988653

>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=94.30  E-value=0.023  Score=44.64  Aligned_cols=26  Identities=12%  Similarity=0.217  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ...-|.|+|..|+|||||...+.+..
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            35678899999999999999887643

>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=94.29  E-value=0.022  Score=44.30  Aligned_cols=20  Identities=10%  Similarity=-0.022  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|.+|+|||||...+.+
T Consensus         3 i~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            78999999999999998865

>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=94.27  E-value=0.024  Score=45.19  Aligned_cols=22  Identities=5%  Similarity=0.075  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||...+.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999988764

>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=94.26  E-value=0.024  Score=45.12  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      --|.|+|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            457899999999999999887643

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.26  E-value=0.024  Score=51.25  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999875

>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=94.24  E-value=0.02  Score=46.60  Aligned_cols=33  Identities=15%  Similarity=0.035  Sum_probs=23.7

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+.+.-.. +...|+|+|.+|+|||||.+.+.+
T Consensus        15 ~l~~~~~~~-~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           15 VLQFLGLYK-KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHHTCTT-CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHHhhccC-CCcEEEEECCCCCCHHHHHHHHhc
Confidence            444443222 234578999999999999998875

>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=94.22  E-value=0.024  Score=45.57  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=19.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|.|+|.+|+|||||+..+.+
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~   42 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLT   42 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999976654

>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=94.21  E-value=0.034  Score=43.38  Aligned_cols=23  Identities=22%  Similarity=0.039  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|+|.+|+|||||...+.+
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45688999999999999998865

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.21  E-value=0.058  Score=46.35  Aligned_cols=32  Identities=9%  Similarity=0.138  Sum_probs=24.5

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      +.........|.++|.+|+|||||...+.+..
T Consensus        32 ~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           32 LKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            33333446678899999999999999887643

>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=94.21  E-value=0.026  Score=45.20  Aligned_cols=21  Identities=19%  Similarity=0.238  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 047336          183 SVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+.+|+|..|.|||||+..++
T Consensus        27 g~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            388999999999999999885

>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=94.19  E-value=0.019  Score=49.16  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=22.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +...|.|.|..|+||||+++.+.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4679999999999999999988773

>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=94.19  E-value=0.022  Score=51.45  Aligned_cols=23  Identities=22%  Similarity=0.189  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -..++|+|..|.|||||++.+..
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            46899999999999999998865

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.16  E-value=0.025  Score=45.00  Aligned_cols=25  Identities=12%  Similarity=0.163  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||.+.+.++
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3567889999999999999988654

>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=94.16  E-value=0.031  Score=44.04  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999988764

>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=94.15  E-value=0.03  Score=44.46  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3556789999999999999988764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.15  E-value=0.058  Score=46.16  Aligned_cols=37  Identities=16%  Similarity=0.181  Sum_probs=26.7

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ++.+.+.....+...|+|+|..|+|||||...+....
T Consensus        24 ~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           24 EFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3344444443456778999999999999999887643

>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=94.15  E-value=0.026  Score=45.43  Aligned_cols=24  Identities=29%  Similarity=0.285  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||+..+.++
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            456789999999999999877653

>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=94.14  E-value=0.026  Score=44.70  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.++
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            456889999999999999988754

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=94.13  E-value=0.021  Score=50.26  Aligned_cols=22  Identities=14%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.| +|+|..|+|||||.+.++.
T Consensus        19 ~~I-~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTL-MVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEE-EEEEETTSSHHHHHHHHHC
T ss_pred             EEE-EEECCCCCCHHHHHHHHhC
Confidence            444 9999999999999999875

>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=94.12  E-value=0.026  Score=51.05  Aligned_cols=23  Identities=26%  Similarity=0.133  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            45899999999999999999975

>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=94.11  E-value=0.026  Score=45.63  Aligned_cols=23  Identities=17%  Similarity=0.011  Sum_probs=19.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|+|.+|+|||||.+.+.+
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            34678999999999999998876

>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=94.10  E-value=0.027  Score=44.64  Aligned_cols=23  Identities=9%  Similarity=0.024  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|.|+|.+|+|||||...+.+
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHc
Confidence            34578999999999999988765

>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=94.09  E-value=0.026  Score=51.48  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            45899999999999999999976

>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=94.09  E-value=0.027  Score=44.33  Aligned_cols=22  Identities=14%  Similarity=0.129  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-|.|+|..|+|||||...+.+
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4678999999999999998865

>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=94.08  E-value=0.069  Score=42.62  Aligned_cols=24  Identities=21%  Similarity=-0.011  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +...|.|+|..|+|||||...+.+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            356788999999999999998875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.08  E-value=0.027  Score=51.05  Aligned_cols=23  Identities=17%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            46899999999999999999875

>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=94.07  E-value=0.027  Score=45.24  Aligned_cols=25  Identities=16%  Similarity=0.207  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||...+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3567899999999999999988763

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=94.07  E-value=0.026  Score=45.67  Aligned_cols=25  Identities=4%  Similarity=0.104  Sum_probs=20.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||.+.+.+.
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhc
Confidence            3556789999999999999987763

>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=94.07  E-value=0.028  Score=44.84  Aligned_cols=25  Identities=20%  Similarity=0.159  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||+..+.+.
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3557889999999999999988753

>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=94.05  E-value=0.061  Score=49.63  Aligned_cols=41  Identities=12%  Similarity=0.232  Sum_probs=28.7

Q ss_pred             cccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          162 VGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +|.......+++.+..  ..-.+++|+|+.|.|||||.+.+..
T Consensus       149 Lg~~~~~~~~L~~l~~--~~ggii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          149 LGMTAHNHDNFRRLIK--RPHGIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             SCCCHHHHHHHHHHHT--SSSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHH--hcCCeEEEECCCCCCHHHHHHHHHh
Confidence            3454444444444443  3467899999999999999998866

>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=94.05  E-value=0.031  Score=44.26  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...|.|+|.+|+|||||...+.+
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45788999999999999998875

>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=94.05  E-value=0.027  Score=51.16  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=20.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCcHHHHHHHHHHc
Confidence            35899999999999999999875

>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=94.04  E-value=0.024  Score=46.13  Aligned_cols=23  Identities=13%  Similarity=0.199  Sum_probs=20.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHh
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ....|.|+|.+|+|||||.+.+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999999884

>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=94.03  E-value=0.028  Score=45.51  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||...+.++
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3567889999999999999988654

>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=94.03  E-value=0.028  Score=44.41  Aligned_cols=24  Identities=8%  Similarity=0.034  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999888753

>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=94.03  E-value=0.023  Score=44.97  Aligned_cols=24  Identities=8%  Similarity=0.068  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.++|.+|+|||||...+.+.
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999987653

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=94.02  E-value=0.041  Score=45.77  Aligned_cols=26  Identities=8%  Similarity=0.156  Sum_probs=22.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+...|.|+|.+|+|||||+..+.+.
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34678899999999999999988764

>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=94.02  E-value=0.028  Score=44.38  Aligned_cols=24  Identities=13%  Similarity=0.268  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+..+
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999888754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.99  E-value=0.035  Score=45.03  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            4567899999999999999988654

>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=93.97  E-value=0.029  Score=51.02  Aligned_cols=23  Identities=17%  Similarity=0.091  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999875

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.97  E-value=0.024  Score=46.82  Aligned_cols=22  Identities=9%  Similarity=0.080  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|.|+.|+||||+++.+-.
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998865

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.94  E-value=0.037  Score=44.49  Aligned_cols=27  Identities=11%  Similarity=-0.022  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .....|.|+|..|+|||||...+.+..
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            446788999999999999999987643

>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=93.94  E-value=0.03  Score=44.15  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.+.
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999988653

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.91  E-value=0.033  Score=45.17  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||+..+.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999988764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.91  E-value=0.055  Score=45.64  Aligned_cols=24  Identities=13%  Similarity=-0.035  Sum_probs=18.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -..|.|-|+.|+||||+++.+.+.
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~   48 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDR   48 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458899999999999999999883

>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=93.89  E-value=0.03  Score=45.15  Aligned_cols=25  Identities=16%  Similarity=0.263  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             CceEEEEECcCCCCHHHHHHHHhcC
Confidence            3456889999999999999988654

>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=93.89  E-value=0.031  Score=45.17  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||+..+.+.
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999988764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.85  E-value=0.029  Score=50.50  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|+|||||.+.+.+.
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999884

>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=93.85  E-value=0.036  Score=48.70  Aligned_cols=25  Identities=12%  Similarity=0.195  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +...|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999988764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=93.84  E-value=0.055  Score=43.21  Aligned_cols=34  Identities=21%  Similarity=-0.022  Sum_probs=24.6

Q ss_pred             HHHHHhcCC-CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          171 LLDLLIEGP-TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       171 L~~~L~~~~-~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+||.--. .+..-|.|+|.+|+|||||...+.+
T Consensus        10 ~~~~l~~f~~~~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           10 LKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             HHHHHHTSCTTSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHhhhccCCCceEEEEECCCCCCHHHHHHHHHc
Confidence            455443212 3456689999999999999999864

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.83  E-value=0.032  Score=44.73  Aligned_cols=24  Identities=8%  Similarity=0.088  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.+.
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999988774

>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=93.82  E-value=0.033  Score=50.55  Aligned_cols=24  Identities=13%  Similarity=0.288  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|+|||||++.+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            356899999999999999998865

>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=93.82  E-value=0.035  Score=49.18  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.|+|+.|+||||||..+..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHH
Confidence            357899999999999999998865

>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=93.81  E-value=0.032  Score=44.20  Aligned_cols=24  Identities=21%  Similarity=0.040  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +...|.|+|..|+|||||...+.+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            466788999999999999999875

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.80  E-value=0.033  Score=44.68  Aligned_cols=26  Identities=12%  Similarity=0.208  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ...-|.|+|..|+|||||...+.++.
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            35678999999999999999887643

>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=93.78  E-value=0.039  Score=47.45  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999988764

>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=93.77  E-value=0.046  Score=43.49  Aligned_cols=26  Identities=12%  Similarity=-0.005  Sum_probs=22.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      +...|.|+|.+|+|||||...+.+..
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            45678899999999999999987643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.76  E-value=0.034  Score=44.97  Aligned_cols=25  Identities=8%  Similarity=0.056  Sum_probs=20.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3556789999999999999888754

>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=93.75  E-value=0.064  Score=46.37  Aligned_cols=36  Identities=8%  Similarity=0.041  Sum_probs=27.5

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-+..||....++..-|-++|++|.|||+||..+-+
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            345566665434456789999999999999998876

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.74  E-value=0.033  Score=45.25  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||+..+.+.
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3567889999999999999988764

>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=93.73  E-value=0.034  Score=44.98  Aligned_cols=25  Identities=8%  Similarity=-0.058  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +..-|.|+|.+|+|||||...+.+.
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhC
Confidence            3556899999999999999998653

>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=93.71  E-value=0.023  Score=51.12  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCccHHHHHHHHHc
Confidence            45899999999999999999976

>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=93.70  E-value=0.035  Score=44.46  Aligned_cols=24  Identities=13%  Similarity=0.209  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|..|+|||||...+.++
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            567899999999999999988654

>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=93.70  E-value=0.035  Score=44.53  Aligned_cols=24  Identities=13%  Similarity=0.008  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|..|+|||||...+.+.
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999988753

>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=93.70  E-value=0.035  Score=45.47  Aligned_cols=25  Identities=12%  Similarity=0.042  Sum_probs=20.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457889999999999999988754

>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=93.69  E-value=0.12  Score=45.85  Aligned_cols=42  Identities=10%  Similarity=0.058  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhcccccccc--CCeeEEEECCCCCCHH
Q 047336          184 VVAILDSIGLDKTAFTAEAYNSSYVKHY--FDYLAWIPAPYQYDPD  227 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d~~v~~~--F~~~~wV~vs~~~~~~  227 (290)
                      ++-|.|.+|+|||||+-++...  ....  =..++||+-..+++..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~--~~~~g~g~~vlyId~E~s~~~~   73 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSS--YMRQYPDAVCLFYDSEFGITPA   73 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH--HHHHCTTCEEEEEESSCCCCHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEeccchhhHH
Confidence            7899999999999998877653  2222  1357888887777653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.69  E-value=0.028  Score=50.76  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|..|.|||||++.+..
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34899999999999999999876

>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=93.69  E-value=0.035  Score=44.65  Aligned_cols=25  Identities=8%  Similarity=0.080  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999988764

>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=93.68  E-value=0.036  Score=44.56  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999988753

>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=93.67  E-value=0.069  Score=48.16  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||.+.+..
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45999999999999999998755

>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=93.66  E-value=0.039  Score=51.01  Aligned_cols=24  Identities=17%  Similarity=0.054  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+|.+|+||||++..+..
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~  120 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLAL  120 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            367999999999999999988876

>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=93.66  E-value=0.036  Score=44.32  Aligned_cols=24  Identities=13%  Similarity=0.207  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|.|+|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999988764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.65  E-value=0.035  Score=45.12  Aligned_cols=25  Identities=16%  Similarity=0.191  Sum_probs=20.7

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||.+.+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            4567889999999999999988753

>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=93.65  E-value=0.032  Score=44.89  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.++
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            556789999999999999988764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.62  E-value=0.035  Score=44.76  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..-|.|+|..|+|||||...+.++.
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987643

>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=93.60  E-value=0.037  Score=44.83  Aligned_cols=25  Identities=8%  Similarity=0.200  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||...+.+.
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            4567889999999999999988653

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.60  E-value=0.037  Score=44.30  Aligned_cols=25  Identities=12%  Similarity=0.206  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|..|+|||||...+.+.
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcC
Confidence            3567889999999999999988653

>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=93.58  E-value=0.021  Score=51.55  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999875

>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=93.57  E-value=0.048  Score=45.81  Aligned_cols=26  Identities=12%  Similarity=0.138  Sum_probs=22.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ....|+|+|..|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            46778999999999999999988743

>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=93.56  E-value=0.035  Score=50.73  Aligned_cols=23  Identities=17%  Similarity=0.197  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999999875

>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=93.56  E-value=0.059  Score=48.84  Aligned_cols=44  Identities=18%  Similarity=0.132  Sum_probs=31.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDP  226 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~  226 (290)
                      .-.++-|.|.+|+||||||..+....  ...=..++|++...+++.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~--~~~g~~vlyi~~E~s~~~  116 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDP  116 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH--HHCCCeEEEEECCCChhH
Confidence            35578889999999999998776532  222236788888776654

>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=93.56  E-value=0.037  Score=45.33  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...-|.|+|.+|+|||||++.+.+
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~   48 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQ   48 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHh
Confidence            356788999999999999998764

>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=93.56  E-value=0.057  Score=54.39  Aligned_cols=45  Identities=18%  Similarity=0.307  Sum_probs=36.3

Q ss_pred             cccccchhHHHHHHHHhcC-----C--CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIEG-----P--TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~-----~--~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.+..++.+...+...     +  .....+-|+|..|+|||+||+.+.+
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~  610 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA  610 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999988887531     1  2245788999999999999999987

>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=93.54  E-value=0.035  Score=44.64  Aligned_cols=23  Identities=13%  Similarity=0.151  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..-|.|+|.+|+|||||...+.+
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45688999999999999998865

>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=93.54  E-value=0.087  Score=44.67  Aligned_cols=52  Identities=12%  Similarity=0.031  Sum_probs=32.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      -..|.|.|+.|+||||+++.+.+... ...+.......-+..-...+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeecCCCCCHHHHHHHHHH
Confidence            46899999999999999999987332 22455344444333222233444444

>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=93.53  E-value=0.036  Score=51.23  Aligned_cols=21  Identities=19%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -++|+|..|+|||||.+.++.
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            399999999999999999976

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=93.53  E-value=0.045  Score=44.87  Aligned_cols=25  Identities=12%  Similarity=0.032  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||++.+.++
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3566889999999999999988764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.52  E-value=0.092  Score=44.14  Aligned_cols=25  Identities=12%  Similarity=-0.080  Sum_probs=22.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-..|.|.|+.|+||||+++.+.+.
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~   44 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEY   44 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999873

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.49  E-value=0.097  Score=43.61  Aligned_cols=52  Identities=12%  Similarity=0.012  Sum_probs=32.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      ..|.+-|..|+||||+++.+.+.... ..+.......-+..-.+.+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~-~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQ-LGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH-TTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH-cCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            47889999999999999999874322 23423333333333234455555554

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.48  E-value=0.13  Score=42.53  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..|+|-|..|+||||+++.+.+.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~   25 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR   25 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH
Confidence            36889999999999999999883

>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=93.46  E-value=0.039  Score=44.86  Aligned_cols=24  Identities=13%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            457889999999999999988653

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=93.46  E-value=0.047  Score=45.75  Aligned_cols=24  Identities=13%  Similarity=0.034  Sum_probs=19.5

Q ss_pred             CcEEEEEEcC-CCCChhHHHHHHhc
Q 047336          181 QLSVVAILDS-IGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGm-gGiGKTTLa~~vy~  204 (290)
                      ..++|+|++. ||+||||+|-.+-.
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~   27 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAF   27 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHH
Confidence            4678999965 99999999987654

>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=93.46  E-value=0.039  Score=45.43  Aligned_cols=25  Identities=16%  Similarity=0.123  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|.+|+|||||...+.++
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999988763

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=93.45  E-value=0.043  Score=46.90  Aligned_cols=25  Identities=12%  Similarity=0.139  Sum_probs=20.1

Q ss_pred             CCcEEEEEEc-CCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILD-SIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvG-mgGiGKTTLa~~vy~  204 (290)
                      ...++|+|++ -||+||||+|-.+-.
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~   50 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILAT   50 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHH
Confidence            4578999975 599999999987765

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=93.44  E-value=0.043  Score=44.62  Aligned_cols=22  Identities=23%  Similarity=0.211  Sum_probs=18.4

Q ss_pred             EEEEEE-cCCCCChhHHHHHHhc
Q 047336          183 SVVAIL-DSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~Iv-GmgGiGKTTLa~~vy~  204 (290)
                      ++|+|+ +-||+||||+|-.+-.
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~   24 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIAT   24 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHH
Confidence            688998 5699999999987755

>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=93.43  E-value=0.036  Score=44.46  Aligned_cols=25  Identities=20%  Similarity=-0.019  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ...|.|+|..|+|||||...+.+..
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            4567899999999999999987654

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=93.42  E-value=0.04  Score=44.59  Aligned_cols=22  Identities=14%  Similarity=0.191  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ..-|.|+|.+|+|||||.....
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~   27 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFA   27 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            4568899999999999998775

>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=93.40  E-value=0.039  Score=43.89  Aligned_cols=24  Identities=17%  Similarity=-0.036  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|.|+|..|+|||||...+.+.
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999988753

>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=93.40  E-value=0.04  Score=44.99  Aligned_cols=24  Identities=8%  Similarity=-0.004  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.++
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999988763

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.39  E-value=0.041  Score=45.50  Aligned_cols=21  Identities=14%  Similarity=0.162  Sum_probs=17.4

Q ss_pred             EEEEE-cCCCCChhHHHHHHhc
Q 047336          184 VVAIL-DSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~Iv-GmgGiGKTTLa~~vy~  204 (290)
                      +|+|+ +-||+||||+|..+-.
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~   23 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSA   23 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHH
Confidence            67887 5699999999987765

>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=93.39  E-value=0.033  Score=49.66  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|..|.|||||++.+..
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g  193 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIME  193 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4789999999999999999976

>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=93.33  E-value=0.086  Score=48.78  Aligned_cols=44  Identities=25%  Similarity=0.303  Sum_probs=32.9

Q ss_pred             cccchhHHHHHHHHhcC---------CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          162 VGLDDRMEELLDLLIEG---------PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~~---------~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.++-.+.|.+.+...         ......|+|+|.+|+|||||.+.+...
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            45667777777766521         124568999999999999999998764

>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=93.32  E-value=0.085  Score=49.09  Aligned_cols=21  Identities=24%  Similarity=0.167  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+-|.|.+|+||||++..+..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~   67 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIE   67 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            888999999999999998877

>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=93.29  E-value=0.044  Score=44.58  Aligned_cols=25  Identities=8%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...-|.|+|.+|+|||||...+...
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3567889999999999999988753

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=93.25  E-value=0.054  Score=47.69  Aligned_cols=26  Identities=15%  Similarity=0.268  Sum_probs=23.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .....|+|+|.+|+|||||...+...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            45789999999999999999988764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.25  E-value=0.034  Score=52.03  Aligned_cols=24  Identities=17%  Similarity=0.145  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|..|+|||||++.+..
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999999876

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.23  E-value=0.043  Score=52.30  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|+.|.|||||++.++.-
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999873

>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=93.23  E-value=0.047  Score=50.05  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|+.|+||||||..+..
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5889999999999999988865

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.21  E-value=0.044  Score=52.30  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|+|||||++.+..
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~G  316 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVG  316 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999987

>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=93.20  E-value=0.045  Score=44.55  Aligned_cols=26  Identities=12%  Similarity=0.111  Sum_probs=21.7

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....-|.|+|.+|+|||||+..+.+.
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhC
Confidence            34567899999999999999988653

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=93.20  E-value=0.068  Score=46.89  Aligned_cols=34  Identities=18%  Similarity=0.228  Sum_probs=26.6

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+++..++.     -.+++|+|+.|+|||||.+.+...
T Consensus       159 gv~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          159 GIEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             THHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CHHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhccc
Confidence            3556666654     247899999999999999999763

>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=93.20  E-value=0.028  Score=44.64  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=10.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|..|+|||||...+.++
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999887653

>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=93.18  E-value=0.05  Score=44.57  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcC
Confidence            3556889999999999999988764

>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=93.17  E-value=0.045  Score=43.97  Aligned_cols=24  Identities=13%  Similarity=0.124  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|..|+|||||+..+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            457889999999999999888754

>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=93.17  E-value=0.046  Score=44.37  Aligned_cols=24  Identities=13%  Similarity=0.008  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..-|.|+|.+|+|||||...+.++
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999988763

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.15  E-value=0.046  Score=44.61  Aligned_cols=24  Identities=8%  Similarity=-0.015  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||+..+.++
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999888653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.13  E-value=0.046  Score=46.23  Aligned_cols=23  Identities=13%  Similarity=0.019  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -..++|.|++|+||||+|+.+-+
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHH
Confidence            45689999999999999998876

>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=93.09  E-value=0.066  Score=43.66  Aligned_cols=24  Identities=8%  Similarity=0.036  Sum_probs=20.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-.|.|+|.+|+|||||...+.++
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999877653

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.08  E-value=0.045  Score=49.43  Aligned_cols=46  Identities=11%  Similarity=0.235  Sum_probs=26.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...+|+..-....-+.....+..+ -|+|+|..|+|||||+..++..
T Consensus        15 ~~~v~~~~l~~~~~~k~~~~~~~~-~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           15 PGYVGFANLPNQVHRKSVKKGFEF-TLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             ------CCHHHHHHTHHHHHCCEE-CEEECCCTTSCHHHHHHHHTTC
T ss_pred             CceEEeccchHHhCCeeecCCCCE-EEEEEcCCCCCHHHHHHHHhCC
Confidence            345666555444443322222223 3589999999999999998763

>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=93.08  E-value=0.056  Score=51.32  Aligned_cols=24  Identities=13%  Similarity=0.115  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.++|++|.||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999865

>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=93.05  E-value=0.051  Score=49.09  Aligned_cols=24  Identities=8%  Similarity=0.160  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .+++|+|..|+|||||.+.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            488999999999999999998643

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.03  E-value=0.05  Score=44.19  Aligned_cols=21  Identities=14%  Similarity=-0.023  Sum_probs=17.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHh
Q 047336          183 SVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .++.|+|+.|+||||++..+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~   24 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFV   24 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            477899999999999984443

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.02  E-value=0.052  Score=47.74  Aligned_cols=31  Identities=19%  Similarity=0.307  Sum_probs=24.9

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHh
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .++|.+.+.     -.+++++|+.|+|||||.+.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            456666554     2478999999999999999987

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.02  E-value=0.1  Score=45.05  Aligned_cols=38  Identities=13%  Similarity=0.184  Sum_probs=27.9

Q ss_pred             HHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          169 EELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       169 ~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ++|.+.|..    .......|+|+|.+|+|||||...+....
T Consensus         9 ~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B            9 NRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             HHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             HHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            445555543    12456789999999999999999987643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.01  E-value=0.053  Score=51.74  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .=.+++|+|+.|.|||||.+.+..
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~G   47 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAG   47 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999999876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=92.97  E-value=0.17  Score=47.07  Aligned_cols=53  Identities=13%  Similarity=0.143  Sum_probs=35.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      ..-.++.|.|.+|+||||||..+..+.... .=..++|++...  +...+...++.
T Consensus       201 ~~G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~--s~~~l~~r~~~  253 (454)
T 2r6a_A          201 QRSDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM--SAQQLVMRMLC  253 (454)
T ss_dssp             CTTCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC--CHHHHHHHHHH
Confidence            345688899999999999999887632221 112577777544  34566665553

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=92.97  E-value=0.059  Score=45.55  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=18.1

Q ss_pred             EEEEEEcC-CCCChhHHHHHHhc
Q 047336          183 SVVAILDS-IGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGm-gGiGKTTLa~~vy~  204 (290)
                      ++|+|+|. ||+||||+|-.+-.
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~   25 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIAT   25 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH
Confidence            68888765 99999999987755

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=92.96  E-value=0.035  Score=45.73  Aligned_cols=27  Identities=15%  Similarity=0.042  Sum_probs=23.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .....|.|+|..|+|||||...+.+..
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            346678999999999999999998754

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.96  E-value=0.036  Score=53.01  Aligned_cols=24  Identities=17%  Similarity=0.025  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+|.|+|+.|+|||||++.+..
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            347899999999999999999987

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=92.96  E-value=0.054  Score=44.62  Aligned_cols=23  Identities=13%  Similarity=0.099  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|+|.|+.|+||||+++.+-.
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~   28 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAE   28 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHH
Confidence            35899999999999999998865

>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=92.96  E-value=0.053  Score=44.68  Aligned_cols=24  Identities=13%  Similarity=0.116  Sum_probs=20.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|.+|+|||||...+.++
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999988654

>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=92.94  E-value=0.068  Score=45.42  Aligned_cols=25  Identities=12%  Similarity=0.114  Sum_probs=21.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....|+|+|.+|+|||||...+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999988654

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=92.92  E-value=0.067  Score=46.98  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +...|+|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999988764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=92.91  E-value=0.049  Score=50.58  Aligned_cols=24  Identities=8%  Similarity=0.099  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      =.+++|+|..|+|||||++.+.+.
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            468999999999999999999873

>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=92.86  E-value=0.051  Score=50.16  Aligned_cols=21  Identities=14%  Similarity=0.385  Sum_probs=18.9

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |+|+|..|+|||||++.+...
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            499999999999999998864

>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=92.86  E-value=0.055  Score=50.84  Aligned_cols=22  Identities=18%  Similarity=0.108  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|+|||||.+.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            7999999999999999998864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.84  E-value=0.054  Score=51.67  Aligned_cols=23  Identities=22%  Similarity=0.108  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999876

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=92.82  E-value=0.042  Score=48.05  Aligned_cols=26  Identities=12%  Similarity=0.171  Sum_probs=23.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..+..|+|+|..|+|||||...+...
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            46789999999999999999988764

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=92.82  E-value=0.057  Score=44.78  Aligned_cols=24  Identities=13%  Similarity=0.181  Sum_probs=20.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...-|.|+|.+|+|||||......
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345688999999999999988763

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=92.76  E-value=0.055  Score=52.37  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||++.+..
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~G  404 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAG  404 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999987

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=92.76  E-value=0.04  Score=46.17  Aligned_cols=21  Identities=24%  Similarity=0.257  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|+|.|-||+||||+|-.+-.
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~   22 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIK   22 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHH
Confidence            377789999999999987754

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.69  E-value=0.083  Score=43.71  Aligned_cols=24  Identities=13%  Similarity=-0.072  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|+|+||.|+||+|.|..+-+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHH
Confidence            357999999999999999988765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.66  E-value=0.039  Score=53.29  Aligned_cols=21  Identities=14%  Similarity=0.129  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -+-++|.+|+|||+||+.+.+
T Consensus       329 ~vLL~GppGtGKT~LAr~la~  349 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISR  349 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSST
T ss_pred             ceEEECCCchHHHHHHHHHHH
Confidence            467899999999999999987

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.61  E-value=0.28  Score=43.82  Aligned_cols=54  Identities=15%  Similarity=-0.042  Sum_probs=36.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      .-.++-|.|.+|+||||||..+..+...  +=..++|++.  .-+...+...++....
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSl--Ems~~ql~~Rlls~~~   98 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSL--EMSAEQLALRALSDLT   98 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEES--SSCHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeC--CCCHHHHHHHHHHHhh
Confidence            3457888999999999999888663222  1124566655  4556777777766543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.57  E-value=0.061  Score=52.08  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|..|.|||||++.+..
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~G  400 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAG  400 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5799999999999999999976

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=92.54  E-value=0.058  Score=46.46  Aligned_cols=23  Identities=13%  Similarity=0.312  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|+|+|.+|+|||||...++..
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999987653

>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=92.51  E-value=0.075  Score=43.99  Aligned_cols=23  Identities=22%  Similarity=0.094  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -..|.|.|..|+||||||..+..
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999998866

>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=92.51  E-value=0.063  Score=45.97  Aligned_cols=23  Identities=13%  Similarity=0.133  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.|+++|.+|+|||||...+...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            46899999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.51  E-value=0.071  Score=44.97  Aligned_cols=21  Identities=24%  Similarity=0.113  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|-+.|.||+||||+|-.+-.
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~   28 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAH   28 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            466789999999999776655

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=92.47  E-value=0.087  Score=47.62  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=20.9

Q ss_pred             CCcEEEEEEc-CCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILD-SIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvG-mgGiGKTTLa~~vy~  204 (290)
                      .+.++|+|+| -||+||||+|-.+-.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~  166 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAI  166 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHH
Confidence            4689999996 799999999876654

>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=92.46  E-value=0.074  Score=49.69  Aligned_cols=24  Identities=8%  Similarity=0.057  Sum_probs=21.0

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.++|++|+||||+++.+..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~   61 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTR   61 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            356888999999999999999876

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=92.43  E-value=0.062  Score=51.65  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|.|||||++.+..
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346899999999999999999975

>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=92.41  E-value=0.068  Score=48.32  Aligned_cols=26  Identities=12%  Similarity=0.149  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .+++|+|+|.+|+|||||.+.+.+..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            46789999999999999999988743

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.40  E-value=0.064  Score=51.89  Aligned_cols=23  Identities=13%  Similarity=0.147  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus       103 Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          103 GQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45999999999999999999875

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=92.39  E-value=0.069  Score=44.12  Aligned_cols=25  Identities=12%  Similarity=0.243  Sum_probs=20.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3457889999999999999888653

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=92.32  E-value=0.17  Score=47.56  Aligned_cols=53  Identities=11%  Similarity=0.043  Sum_probs=40.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC-HHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD-PDQILDTVTW  235 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~-~~~ll~~Il~  235 (290)
                      =.-++|+|..|+|||+|++.+-++ ..+.|-+.++++-+.+..+ +.++.+++..
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~-~a~~~~~v~V~~~iGER~rEv~e~~~~~~~  218 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINN-IAKAHGGVSVFGGVGERTREGNDLYMEMKE  218 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHH-TTTTCSSCEEEEEESCCSHHHHHHHHHHHH
T ss_pred             CCeEEeecCCCCCchHHHHHHHHH-HHhhCCCEEEEEEcccCcHHHHHHHHhhhc
Confidence            356899999999999999888763 1234567889999988774 4567777764

>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=92.27  E-value=0.087  Score=45.55  Aligned_cols=24  Identities=13%  Similarity=0.159  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            457899999999999999998764

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=92.26  E-value=0.084  Score=43.95  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=18.2

Q ss_pred             EEEEEEc-CCCCChhHHHHHHhc
Q 047336          183 SVVAILD-SIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvG-mgGiGKTTLa~~vy~  204 (290)
                      ++|+|+| -||+||||+|-.+-.
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~   25 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSV   25 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCCHHHHHHHHHH
Confidence            5788886 599999999987765

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=92.25  E-value=0.15  Score=47.68  Aligned_cols=54  Identities=13%  Similarity=0.121  Sum_probs=40.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCC-HHHHHHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYD-PDQILDTVTWL  236 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~-~~~ll~~Il~~  236 (290)
                      =.-++|+|..|+|||||++.+-++. .+.+-+.++++-+.+..+ +.++++++...
T Consensus       153 GQr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          153 GGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             CCeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            3578999999999999998887631 234557788888888764 45677777654

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=92.22  E-value=0.071  Score=51.62  Aligned_cols=23  Identities=26%  Similarity=0.122  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|..|.|||||++.+..
T Consensus       117 Ge~~~LiG~NGsGKSTLlkiL~G  139 (607)
T 3bk7_A          117 GMVVGIVGPNGTGKTTAVKILAG  139 (607)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            46899999999999999999876

>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=92.21  E-value=0.068  Score=51.39  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|.|||||++.+..
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999999875

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.20  E-value=0.1  Score=43.57  Aligned_cols=50  Identities=14%  Similarity=0.148  Sum_probs=31.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      .-.++-|.|.+|+||||||.++.-+ .....-..+++++...  +...+.+.+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~-~~~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYK-GAEEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHH-HHHHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH-HHHhcCCCceeecccC--CHHHHHHHH
Confidence            3467888999999999999775431 2222234566666543  345555444

>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=92.19  E-value=0.096  Score=40.89  Aligned_cols=22  Identities=14%  Similarity=0.178  Sum_probs=19.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ..+..|+|+.|.|||||...++
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4588999999999999988775

>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=92.18  E-value=0.084  Score=45.20  Aligned_cols=25  Identities=16%  Similarity=0.185  Sum_probs=21.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +...|+++|.+|+|||||...+...
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCC
Confidence            3457899999999999999988763

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.09  E-value=0.073  Score=51.38  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-.+++|+|+.|.|||||++.+..
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            356899999999999999999976

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=92.04  E-value=0.082  Score=44.04  Aligned_cols=21  Identities=14%  Similarity=0.180  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|-+|+|||+|+....+
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            467999999999999987654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=92.02  E-value=0.09  Score=47.21  Aligned_cols=25  Identities=12%  Similarity=0.201  Sum_probs=22.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ....|+|+|.+|+|||||...+...
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999998764

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=92.01  E-value=0.093  Score=44.65  Aligned_cols=22  Identities=5%  Similarity=-0.068  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|+|.|+.|+||||+|+.+-.
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~   23 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998865

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=91.95  E-value=0.16  Score=46.15  Aligned_cols=26  Identities=23%  Similarity=0.094  Sum_probs=20.9

Q ss_pred             CCCcEEEEEE-cCCCCChhHHHHHHhc
Q 047336          179 PTQLSVVAIL-DSIGLDKTAFTAEAYN  204 (290)
Q Consensus       179 ~~~~~Vi~Iv-GmgGiGKTTLa~~vy~  204 (290)
                      ....++|+|+ |-||+||||+|-.+-.
T Consensus       105 ~~~~~vIav~s~KGGvGKTT~a~nLA~  131 (398)
T 3ez2_A          105 YSEAYVIFISNLKGGVSKTVSTVSLAH  131 (398)
T ss_dssp             CCSCEEEEECCSSSSSSHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCccHHHHHHHHHH
Confidence            3568899999 6699999998876643

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=91.93  E-value=0.037  Score=48.89  Aligned_cols=23  Identities=9%  Similarity=0.144  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|+|+.|+|||||.+.+...
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            48899999999999999999763

>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=91.90  E-value=0.16  Score=44.74  Aligned_cols=73  Identities=14%  Similarity=-0.004  Sum_probs=44.2

Q ss_pred             ccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc-ccc-ccCCeeEEEECCC-CCCHHHHHHHHHHHhhh
Q 047336          163 GLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS-YVK-HYFDYLAWIPAPY-QYDPDQILDTVTWLSRR  239 (290)
Q Consensus       163 G~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~-~v~-~~F~~~~wV~vs~-~~~~~~ll~~Il~~l~~  239 (290)
                      |-++..+.|.+.+..+.  .+.+-++|+.|+||||+|+.+-+.. ... .|.+. .++..+. ...+.. .+++++.+..
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~-ir~li~~~~~   76 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDD-IRTIKDFLNY   76 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHH-HHHHHHHHTS
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHH-HHHHHHHHhh
Confidence            34556667777776554  6788899999999999999886521 011 23333 4555443 344444 4557766653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=91.86  E-value=0.038  Score=44.71  Aligned_cols=24  Identities=17%  Similarity=0.163  Sum_probs=5.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .--|.|+|..|+|||||...+.++
T Consensus        20 ~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           20 RCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEC-----------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999887764

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=91.82  E-value=0.087  Score=44.95  Aligned_cols=23  Identities=26%  Similarity=0.228  Sum_probs=18.4

Q ss_pred             cEEEEEE-cCCCCChhHHHHHHhc
Q 047336          182 LSVVAIL-DSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~Iv-GmgGiGKTTLa~~vy~  204 (290)
                      .++|+|+ |-||+||||+|-.+-.
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~   41 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAV   41 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHH
Confidence            5688887 4699999999887654

>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=91.80  E-value=0.044  Score=44.99  Aligned_cols=23  Identities=13%  Similarity=0.322  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|.|+|..|+|||||...+.+
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999988875

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=91.74  E-value=0.089  Score=45.59  Aligned_cols=22  Identities=14%  Similarity=0.214  Sum_probs=18.4

Q ss_pred             EEEEEEc-CCCCChhHHHHHHhc
Q 047336          183 SVVAILD-SIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvG-mgGiGKTTLa~~vy~  204 (290)
                      ++|+|++ -||+||||+|..+-.
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~   27 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVT   27 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHH
Confidence            5888884 699999999988765

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=91.70  E-value=0.11  Score=50.03  Aligned_cols=24  Identities=13%  Similarity=-0.020  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+|.|.|+.|+||||+|+.+-+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~  418 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQV  418 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHH
Confidence            357899999999999999999876

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=91.58  E-value=0.13  Score=48.68  Aligned_cols=25  Identities=8%  Similarity=0.146  Sum_probs=22.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...+|.+.|+.|+||||+|+.+-..
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~  418 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLST  418 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHHH
Confidence            4578999999999999999999873

>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=91.58  E-value=0.09  Score=49.84  Aligned_cols=19  Identities=21%  Similarity=0.275  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~v  202 (290)
                      +++|+|..|.|||||++.+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=91.55  E-value=0.18  Score=46.56  Aligned_cols=45  Identities=9%  Similarity=0.230  Sum_probs=32.3

Q ss_pred             cccchhHHHHHHHHhcC-----CCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          162 VGLDDRMEELLDLLIEG-----PTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       162 vG~e~~~~~L~~~L~~~-----~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .|.++-.+.|.+.+...     +.....|+|+|.+|+|||||...+....
T Consensus       150 ~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~lvG~~nvGKSSLin~l~~~~  199 (436)
T 2hjg_A          150 LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLGEE  199 (436)
T ss_dssp             BTHHHHHHHHHHTGGGCCSSCCCTTCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CChHHHHHHHHHhcCccccccccccCcEEEEEcCCCCCHHHHHHHHhCCC
Confidence            35556666666655432     2356788999999999999999887654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=91.52  E-value=0.082  Score=50.06  Aligned_cols=21  Identities=10%  Similarity=0.014  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|+|..|.|||||++.+..
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~  282 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMM  282 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998876

---

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	290
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-04

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

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]

 Score = 39.0 bits (90), Expect = 4e-04
 Identities = 8/77 (10%), Positives = 23/77 (29%), Gaps = 3/77 (3%)

Query: 160 NTVGLDDRMEELLDLLIEGPTQ-LSVVAILDSIGLDKTAFTAEAYNSS--YVKHYFDYLA 216
                +  ++ ++  L E        + +    G  K+   ++A + S   +   +D + 
Sbjct: 21  TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV 80

Query: 217 WIPAPYQYDPDQILDTV 233
           W+               
Sbjct: 81  WLKDSGTAPKSTFDLFT 97

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	290
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.77
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.43
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.17
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.06
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.71
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.69
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.65
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.59
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.57
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.57
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.55
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.5
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.48
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.47
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.38
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.32
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.31
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.31
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.21
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.19
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.19
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.16
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.15
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.05
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.05
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.04
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.03
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.01
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.99
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.97
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.95
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.91
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.88
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.86
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.85
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.83
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.81
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.77
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.74
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.71
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.67
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.63
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.62
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.61
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.58
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.57
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.55
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.53
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.51
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.5
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.47
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.41
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.38
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.29
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.29
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.28
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.28
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.25
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.24
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.23
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.18
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.12
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.09
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.07
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.04
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.02
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.02
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.97
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.85
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.84
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.82
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.77
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.75
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.73
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.73
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.72
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.71
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.65
d1okkd2	207	GTPase domain of the signal recognition particle r	95.65
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.64
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.63
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.63
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.6
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.59
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.58
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.57
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.56
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.54
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.54
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.52
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.52
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.51
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.51
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.5
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.48
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.48
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.43
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.42
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.4
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.39
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.3
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.29
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.24
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.23
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.22
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.2
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.19
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.18
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.18
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.15
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.14
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.08
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.08
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.06
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.05
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.01
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.93
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.92
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.89
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.88
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.87
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.85
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.84
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.84
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.83
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.82
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.79
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.77
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.76
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.76
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.75
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.69
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.68
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.67
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.67
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.67
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.65
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.65
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.63
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.59
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.59
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.58
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.57
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.56
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.54
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.54
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.54
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.51
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.42
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.41
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.39
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.39
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.37
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.37
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.35
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.31
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.31
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.3
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.28
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.28
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.23
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.22
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.17
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.15
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.1
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.04
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.04
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.03
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.02
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.01
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.96
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.95
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.89
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.89
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.89
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.79
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.74
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.72
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.7
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.67
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.66
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.65
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.64
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.54
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.53
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.52
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.5
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.45
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.45
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.4
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.14
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.09
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.9
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.88
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	92.81
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.7
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.61
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.6
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.59
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.49
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.42
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.42
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	92.32
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.32
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.23
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	92.12
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.75
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.72
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.48
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.39
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	91.27
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	90.8
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.72
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	90.7
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.51
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	90.5
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.26
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.25
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.87
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	89.69
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	89.31
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.92
d1xpua3	289	Transcription termination factor Rho, ATPase domai	88.9
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.81
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.28
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	87.74
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	87.1
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	87.05
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	86.49
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	86.36
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.28
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	85.76
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	85.59
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	85.29
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	85.26
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	85.22
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	85.19
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	85.19
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.72
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	83.54
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.14
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.82
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	81.56
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	81.5

>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=99.77  E-value=8.7e-19  Score=153.08  Aligned_cols=122  Identities=10%  Similarity=0.032  Sum_probs=87.2

Q ss_pred             CCCcccccchhHHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhcccc--ccccCCeeEEEECCCCCCHHHHHHHH
Q 047336          157 KNRNTVGLDDRMEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYNSSY--VKHYFDYLAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~--v~~~F~~~~wV~vs~~~~~~~ll~~I  233 (290)
                      .++.++||+.++++|+++|.. .+....+|+|+||||+||||||+++|++..  .+.+|++++||++|+.++...++..+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            456689999999999999975 456689999999999999999999998643  67789999999999999988887776


Q ss_pred             HHHhhhcCCCchhhHHHHhHHHHhhhccccchhhHHHHHHHHhhc--ceEE--Eecc
Q 047336          234 TWLSRRNLSFSRSWIQKENIAALWKISISFQPCILAAVLKIYWAD--YLIF--EISE  286 (290)
Q Consensus       234 l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~--yLiV--~~~~  286 (290)
                      ...+..-.... .    .+..  .... ..........+.++|.+  ||||  |+|+
T Consensus        98 ~~~~~~~~~~~-~----~~~~--~~~~-~~~~~~~~~~~~~~L~~kr~LlVLDDv~~  146 (277)
T d2a5yb3          98 DILLMLKSEDD-L----LNFP--SVEH-VTSVVLKRMICNALIDRPNTLFVFDDVVQ  146 (277)
T ss_dssp             HHHHHHTTTSC-C----TTCC--CCTT-CCHHHHHHHHHHHHTTSTTEEEEEEEECC
T ss_pred             HHHHHHhcchh-h----cCCc--cchh-hhhHHHHHHHHHHHhccCCeeEecchhhH
Confidence            55543221100 0    0000  0001 11122244568888887  9998  7875

>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=98.43  E-value=1.2e-06  Score=73.38  Aligned_cols=80  Identities=13%  Similarity=0.081  Sum_probs=62.0

Q ss_pred             CcccccchhHHHHHHHHhc----CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCe-eEEEECCCCCCHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIE----GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDY-LAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~----~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~-~~wV~vs~~~~~~~ll~~I  233 (290)
                      ..++||+.+.++|.++|..    .....+.+-|+|++|+||||+|+.+.+  .....+.. .+|+..........++..+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHH--HHhcccCCcEEEecchhhhhhhhhhhhh
Confidence            4589999999999999864    234567888999999999999999998  44444443 4677777777888888888


Q ss_pred             HHHhhhc
Q 047336          234 TWLSRRN  240 (290)
Q Consensus       234 l~~l~~~  240 (290)
                      ...+...
T Consensus        94 ~~~~~~~  100 (276)
T d1fnna2          94 ARSLNIP  100 (276)
T ss_dssp             HHHTTCC
T ss_pred             HHhhhhh
Confidence            8776644

>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=98.17  E-value=3.2e-06  Score=70.99  Aligned_cols=84  Identities=12%  Similarity=0.069  Sum_probs=58.4

Q ss_pred             CCCcccccchhHHHHHHHHhc----CC--CC-cEEEEEEcCCCCChhHHHHHHhccccc----cccCCeeEEEECCCCCC
Q 047336          157 KNRNTVGLDDRMEELLDLLIE----GP--TQ-LSVVAILDSIGLDKTAFTAEAYNSSYV----KHYFDYLAWIPAPYQYD  225 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~----~~--~~-~~Vi~IvGmgGiGKTTLa~~vy~d~~v----~~~F~~~~wV~vs~~~~  225 (290)
                      .++.++||+.+.++|.+++..    +.  .. ..++-++|++|+||||+++.+.+.-.-    ........++..+...+
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            346789999999999988742    22  12 234566799999999999999984210    11123466777777777


Q ss_pred             HHHHHHHHHHHhhhc
Q 047336          226 PDQILDTVTWLSRRN  240 (290)
Q Consensus       226 ~~~ll~~Il~~l~~~  240 (290)
                      ...++..+...+...
T Consensus        94 ~~~~~~~~~~~~~~~  108 (287)
T d1w5sa2          94 LYTILSLIVRQTGYP  108 (287)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             hhhHHHHHhhhcccc
Confidence            788888877776644

>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=98.06  E-value=1.4e-06  Score=72.99  Aligned_cols=42  Identities=14%  Similarity=0.228  Sum_probs=35.7

Q ss_pred             CCCcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          157 KNRNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       157 ~~~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+++||+++.++|.+.      .-+++.|+|++|+|||||++.+.+
T Consensus        10 ~~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHH
Confidence            357899999999998762      246788999999999999999887

>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=97.71  E-value=3e-05  Score=63.82  Aligned_cols=72  Identities=14%  Similarity=0.133  Sum_probs=48.3

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTW  235 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~  235 (290)
                      .++||.++.+++|..|+..   .....+-+-++|++|+||||+|+.+.+.  ...   ..+.++-+....... +..++.
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~--~~~---~~~~~~~~~~~~~~~-~~~~~~   82 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASE--LQT---NIHVTSGPVLVKQGD-MAAILT   82 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHH--HTC---CEEEEETTTCCSHHH-HHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhc--cCC---CcccccCcccccHHH-HHHHHH
Confidence            5689999999999999863   1233445668999999999999999872  222   234455555444443 334444


Q ss_pred             H
Q 047336          236 L  236 (290)
Q Consensus       236 ~  236 (290)
                      .
T Consensus        83 ~   83 (238)
T d1in4a2          83 S   83 (238)
T ss_dssp             H
T ss_pred             h
Confidence            3

>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=97.69  E-value=4.2e-05  Score=63.29  Aligned_cols=64  Identities=13%  Similarity=0.046  Sum_probs=47.0

Q ss_pred             CcccccchhHHHHHHHHhc---------------CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC
Q 047336          159 RNTVGLDDRMEELLDLLIE---------------GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ  223 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---------------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~  223 (290)
                      .+++|.+..+++|.+||..               +....+.+-++|++|+||||+|+.+.+..     .-...++..+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hhhhhccccccc
Confidence            5799999999999999853               12345678899999999999999999832     122456666655


Q ss_pred             CCHH
Q 047336          224 YDPD  227 (290)
Q Consensus       224 ~~~~  227 (290)
                      .+..
T Consensus        89 ~~~~   92 (253)
T d1sxja2          89 RSKT   92 (253)
T ss_dssp             CCHH
T ss_pred             hhhH
Confidence            4443

>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=97.65  E-value=1.6e-05  Score=65.63  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=37.4

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE---GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~---~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +++||.++.+++|..|+..   ....++-+-++|++|+||||||+.+.+
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999988864   222345566899999999999999987

>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=97.59  E-value=2.9e-05  Score=63.67  Aligned_cols=44  Identities=16%  Similarity=0.235  Sum_probs=38.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|-++.++.|.+|+..+.  .+-+-++|++|+||||||+.+-+
T Consensus        24 ~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCcHHHHHHHHHH
Confidence            569999999999999998764  45567999999999999998876

>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=97.57  E-value=2.7e-05  Score=63.60  Aligned_cols=44  Identities=18%  Similarity=0.268  Sum_probs=37.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||-++.++.|.+|+..+.  .+-+-++|++|+||||+|+.+.+
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC--CCeEEEECCCCCCchhhHHHHHH
Confidence            568999999999999998764  34466899999999999998876

>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=97.57  E-value=2.4e-05  Score=64.16  Aligned_cols=69  Identities=13%  Similarity=0.050  Sum_probs=46.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccc-cCCeeEEEECCCCCCHHHH
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKH-YFDYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~-~F~~~~wV~vs~~~~~~~l  229 (290)
                      .+++|.++.++.|.+|+..+.  .+.+-++|++|+||||||+.+.+.-.-.. .+.....+..+.......+
T Consensus        12 ~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~   81 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV   81 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHH
Confidence            458999999999999997654  44467999999999999999987321111 1222344455555454433

>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=97.55  E-value=4.3e-05  Score=62.31  Aligned_cols=44  Identities=16%  Similarity=0.212  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++||.++.++.|.+|+..+.  ++.+-++|+.|+||||+|+.+.+
T Consensus        14 ~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHH
Confidence            569999999999999998754  43456899999999999999987

>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=97.50  E-value=8.4e-05  Score=59.58  Aligned_cols=79  Identities=13%  Similarity=0.115  Sum_probs=52.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc----cccccccCCeeEEEE-C----CC-CC--CHH
Q 047336          160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN----SSYVKHYFDYLAWIP-A----PY-QY--DPD  227 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~----d~~v~~~F~~~~wV~-v----s~-~~--~~~  227 (290)
                      .++||+++.++++..|....  -.-+-+||.+|+|||+++..+..    ...-....+.++|.. +    +. ++  ...
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E  100 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHH
Confidence            48999999999999998754  22346899999999998765544    211223345566643 2    22 22  456


Q ss_pred             HHHHHHHHHhhhc
Q 047336          228 QILDTVTWLSRRN  240 (290)
Q Consensus       228 ~ll~~Il~~l~~~  240 (290)
                      .-++.++.++...
T Consensus       101 ~rl~~il~e~~~~  113 (195)
T d1jbka_         101 ERLKGVLNDLAKQ  113 (195)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhcC
Confidence            6678888887543

>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=97.48  E-value=2.3e-05  Score=60.51  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=21.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++||+|+|..|+|||||++.+-+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            57999999999999999999976

>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=97.47  E-value=2.4e-05  Score=64.69  Aligned_cols=45  Identities=11%  Similarity=0.014  Sum_probs=35.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++..+.|.+++.... ...-+-++|++|+||||+|+.+.+
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHH
Confidence            469999888888888776542 233355999999999999998876

>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=97.38  E-value=0.00011  Score=57.81  Aligned_cols=50  Identities=10%  Similarity=0.001  Sum_probs=33.2

Q ss_pred             HHHHHHHHhc-CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          168 MEELLDLLIE-GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       168 ~~~L~~~L~~-~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      .+.|.+.... ...+.-+|+|.|..|+||||||+.+.+  .....+-+...++
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~--~l~~~~~~~~~~~   57 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ--TLREQGISVCVFH   57 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH--HHHHTTCCEEEEE
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHH--Hhccccccceecc
Confidence            3444444433 345678999999999999999999987  3333333444444

>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=97.32  E-value=0.00049  Score=57.78  Aligned_cols=79  Identities=14%  Similarity=0.157  Sum_probs=53.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc---ccccc-cCCeeEEEE-C----C---CCCCHH
Q 047336          160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS---SYVKH-YFDYLAWIP-A----P---YQYDPD  227 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d---~~v~~-~F~~~~wV~-v----s---~~~~~~  227 (290)
                      .++||+++.++|+..|....  -+-+-+||.+|+|||+|+..+...   ..+-. ..+.++|.. +    +   ..-...
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e   96 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE   96 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             cccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHH
Confidence            48999999999999998654  233449999999999987765541   12222 234455542 2    1   123577


Q ss_pred             HHHHHHHHHhhhc
Q 047336          228 QILDTVTWLSRRN  240 (290)
Q Consensus       228 ~ll~~Il~~l~~~  240 (290)
                      ..++.|+..+...
T Consensus        97 ~r~~~i~~~~~~~  109 (268)
T d1r6bx2          97 KRFKALLKQLEQD  109 (268)
T ss_dssp             HHHHHHHHHHSSS
T ss_pred             HHHHHHHHHhhcc
Confidence            7888899888644

>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=97.31  E-value=4.6e-05  Score=59.25  Aligned_cols=23  Identities=22%  Similarity=0.189  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.|.|.|+.|+||||||+.+-+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999876

>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=97.31  E-value=0.0001  Score=65.37  Aligned_cols=79  Identities=13%  Similarity=0.167  Sum_probs=52.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHH----HHHhccccccccCCeeEEEE-CCC-----CC--CHH
Q 047336          160 NTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFT----AEAYNSSYVKHYFDYLAWIP-APY-----QY--DPD  227 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa----~~vy~d~~v~~~F~~~~wV~-vs~-----~~--~~~  227 (290)
                      .++||+.+.+++++.|.....+-  +-+||.+|+|||+|+    +.+.+..--....+.++|.. ++.     .+  ...
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k~n--~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e  100 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTKNN--PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  100 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSCCC--CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             CCcCcHHHHHHHHHHHhcCCCCC--CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHH
Confidence            47999999999999998654222  246799999999966    55555432233455666653 321     22  566


Q ss_pred             HHHHHHHHHhhhc
Q 047336          228 QILDTVTWLSRRN  240 (290)
Q Consensus       228 ~ll~~Il~~l~~~  240 (290)
                      .-++.|+..+...
T Consensus       101 ~r~~~i~~~~~~~  113 (387)
T d1qvra2         101 ERLKAVIQEVVQS  113 (387)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccC
Confidence            6778888887543

>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=97.21  E-value=8.3e-05  Score=57.13  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|.|.|++|+||||+|+.+-.
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998875

>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=97.19  E-value=6.2e-05  Score=57.21  Aligned_cols=22  Identities=9%  Similarity=0.231  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.|.+.|++|+||||+|+.+-+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3577889999999999999987

>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=97.19  E-value=9.1e-05  Score=56.09  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|.|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999998865

>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=97.16  E-value=7.1e-05  Score=57.67  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=19.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++.|.|.|++|+||||+|+.+..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999865

>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=97.15  E-value=9.7e-05  Score=57.11  Aligned_cols=24  Identities=13%  Similarity=-0.020  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +-.+|.++|++|+||||+|+.+..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999987

>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=97.05  E-value=0.00013  Score=56.41  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.|.|+|++|+|||||++.+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            45889999999999999999863

>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=97.05  E-value=0.00018  Score=57.22  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=24.1

Q ss_pred             CCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          179 PTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       179 ~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +++.+||.|.|++|+||||+|+.+.+.
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999999999873

>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=97.04  E-value=0.00016  Score=57.30  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++.+|.|+|++|+||||+|+.+.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999987

>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=97.03  E-value=0.00032  Score=58.03  Aligned_cols=40  Identities=20%  Similarity=0.379  Sum_probs=30.0

Q ss_pred             chhHHHHHHHHhcC---CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          165 DDRMEELLDLLIEG---PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       165 e~~~~~L~~~L~~~---~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++...+.++++..+   ......|-++|++|+||||||+.+.+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            44455555666543   34567788999999999999999988

>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=97.01  E-value=0.00015  Score=56.03  Aligned_cols=22  Identities=14%  Similarity=0.048  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +||+|+|..|+|||||+..+..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            6899999999999999998877

>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=96.99  E-value=0.00011  Score=57.85  Aligned_cols=25  Identities=16%  Similarity=0.032  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+-.||.++|++|+||||+|+.+..
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457888999999999999999976

>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=96.97  E-value=0.00016  Score=56.18  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|.|.|+.|+||||+++.+.+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

>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=96.95  E-value=0.00023  Score=54.87  Aligned_cols=25  Identities=16%  Similarity=0.081  Sum_probs=21.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++...|.|.|++|+||||+|+.+.+
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4566789999999999999999976

>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=96.91  E-value=0.00049  Score=56.51  Aligned_cols=45  Identities=18%  Similarity=0.177  Sum_probs=36.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++.++.|.+|+..+.. ...+-++|+.|+||||+|+.+.+
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~-~~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRI-HHAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCC-CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCCC-CeeEEEECCCCCcHHHHHHHHHH
Confidence            4799999999999999986542 23456899999999999998754

>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=96.88  E-value=0.00024  Score=56.53  Aligned_cols=23  Identities=9%  Similarity=0.094  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+|.++|.+|+||||||+.+..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>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=96.86  E-value=0.00047  Score=57.50  Aligned_cols=46  Identities=13%  Similarity=0.217  Sum_probs=36.3

Q ss_pred             CcccccchhHHHHHHHHh----c-------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLI----E-------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~----~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.+..+++|.+.+.    .       +-...+-+-++|++|+|||+||+.+.+
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHH
Confidence            358999999999988743    1       222345677999999999999999988

>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=96.85  E-value=0.00033  Score=53.80  Aligned_cols=25  Identities=16%  Similarity=0.264  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+++.|.|++|+||||+|+.+-.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578899999999999999999876

>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=96.83  E-value=0.00028  Score=54.36  Aligned_cols=23  Identities=13%  Similarity=0.148  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -++|.|.|++|+||||+|+.+-+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999976

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.81  E-value=0.00026  Score=54.85  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|+.|+|||||++.+..
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            378999999999999999976

>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=96.77  E-value=0.00025  Score=54.74  Aligned_cols=20  Identities=10%  Similarity=0.122  Sum_probs=17.6

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++||+|+||||+++.+.+
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44669999999999999987

>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=96.74  E-value=0.00035  Score=53.66  Aligned_cols=23  Identities=4%  Similarity=0.014  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.|.|..|+||||+|+.+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999887

>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=96.71  E-value=0.00034  Score=53.91  Aligned_cols=20  Identities=10%  Similarity=0.270  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++||+|+||||+++.+..
T Consensus         3 I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999999977

>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=96.67  E-value=0.00047  Score=53.86  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=22.1

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +...+|-++|++|+||||+|+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999999998865

>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=96.63  E-value=0.0004  Score=59.58  Aligned_cols=46  Identities=13%  Similarity=0.185  Sum_probs=35.3

Q ss_pred             CcccccchhHHHHHHHHhc-----C-------CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-----G-------PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-----~-------~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.++.++.|...+..     +       +...+-+-.+|++|+|||.||+.+.+
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhh
Confidence            3589999999999875521     0       12346667899999999999999987

>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=96.62  E-value=0.00044  Score=55.47  Aligned_cols=44  Identities=14%  Similarity=0.120  Sum_probs=32.4

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      .+||+|-|++|+||||+|+.+-++...    .+         .+.-+++|.+.....
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl----~~---------iStGdLlR~~a~~~~   46 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQW----HL---------LDSGAIYRVLALAAL   46 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTC----EE---------EEHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC----cE---------ECHHHHHHHHHHHHH
Confidence            469999999999999999999883322    11         246678887776543

>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=96.61  E-value=0.00052  Score=54.15  Aligned_cols=23  Identities=26%  Similarity=0.176  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+|.|.|++|+||||.|+.+.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999987

>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=96.58  E-value=0.00061  Score=53.67  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHh
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+.+|||.|+.|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999999774

>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=96.57  E-value=0.0043  Score=49.92  Aligned_cols=50  Identities=18%  Similarity=0.165  Sum_probs=34.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhhh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSRR  239 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~~  239 (290)
                      ...+-|+|..|+|||.|++.+++.  ........++++      ..++...+...+..
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~--~~~~~~~~~~~~------~~~~~~~~~~~~~~   85 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSS------ADDFAQAMVEHLKK   85 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEE------HHHHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHH--hccCccceEEec------hHHHHHHHHHHHHc
Confidence            344679999999999999999994  444444556665      44555555555443

>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=96.55  E-value=0.00059  Score=53.01  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++|.|.|+.|+||||+++.+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6888999999999999999976

>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=96.53  E-value=0.0014  Score=54.22  Aligned_cols=47  Identities=19%  Similarity=0.334  Sum_probs=35.0

Q ss_pred             CcccccchhHHHHHHHH---hc-------CCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          159 RNTVGLDDRMEELLDLL---IE-------GPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L---~~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+++|.++.++.|.+.+   ..       +....+-|-++|++|+|||+||+.+.+.
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHH
Confidence            36999998887766543   21       1223455779999999999999999983

>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=96.51  E-value=0.00084  Score=55.96  Aligned_cols=46  Identities=24%  Similarity=0.301  Sum_probs=34.8

Q ss_pred             CcccccchhHHHHHHHH---hc-------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLL---IE-------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L---~~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++.+++|.+.+   ..       +....+-+-++|++|+|||+||+.+-+
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHH
Confidence            57999998888886543   22       112345677999999999999999987

>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=96.50  E-value=0.00048  Score=53.39  Aligned_cols=21  Identities=14%  Similarity=0.127  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.++|++|+||||+|+.+.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            356889999999999999976

>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=96.47  E-value=0.00077  Score=54.04  Aligned_cols=23  Identities=9%  Similarity=0.111  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +-||||.|..|+||||||+.+.+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999998866

>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=96.47  E-value=0.0016  Score=53.74  Aligned_cols=46  Identities=22%  Similarity=0.151  Sum_probs=33.9

Q ss_pred             CcccccchhHHHHHHHHh------c-C-CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLI------E-G-PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~------~-~-~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|..+..+.+++-+.      . . ...++-|-++|++|+|||+||+.+.+
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhh
Confidence            348888877777666543      1 1 22355677899999999999999988

>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=96.41  E-value=0.00091  Score=52.57  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=20.3

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+++| |+|++|+||||+|+.+-.
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHH
Confidence            346666 789999999999999876

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

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: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.38  E-value=0.00083  Score=55.89  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.|+|+|-||+||||+|-.+-.
T Consensus         1 mr~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCcCCHHHHHHHHHH
Confidence            36899999999999999976544

>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=96.29  E-value=0.002  Score=55.37  Aligned_cols=37  Identities=16%  Similarity=0.210  Sum_probs=28.9

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+|.+.+.....+..+|+|.|++|+|||||.-.+..
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4455555555556789999999999999999987765

>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=96.29  E-value=0.0008  Score=52.90  Aligned_cols=23  Identities=13%  Similarity=-0.142  Sum_probs=20.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..|.|.|++|+||||+|+.+.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            44577999999999999999976

>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=96.28  E-value=0.00097  Score=53.53  Aligned_cols=23  Identities=13%  Similarity=0.024  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -+|+|-|++|+||||+|+.+-..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999773

>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=96.28  E-value=0.0022  Score=55.25  Aligned_cols=63  Identities=13%  Similarity=0.017  Sum_probs=33.0

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCe--eEEEECCCCCCHHHHHHHH
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDY--LAWIPAPYQYDPDQILDTV  233 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~--~~wV~vs~~~~~~~ll~~I  233 (290)
                      .++.+.+.....+..+|+|+|.+|+|||||...+-..  ....-..  .+-+..|.+++-..++.+-
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~--~~~~g~~vavlavDpss~~~ggailgdr  105 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGML--LIREGLKVAVIAVDPSSPVTGGSILGDK  105 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHH--HHHTTCCEEEEEECCC------------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHH--HHhcCCceeeecCCCceeeeccccccch
Confidence            4555555554567999999999999999999877652  2222222  2333445555555555543

>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=96.25  E-value=0.0009  Score=55.97  Aligned_cols=46  Identities=28%  Similarity=0.304  Sum_probs=35.0

Q ss_pred             CcccccchhHHHHHHHHh----c-------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLI----E-------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~----~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|.++.+++|.+.+.    .       +-...+-|-++|++|+|||+||+.+.+
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHH
Confidence            458898888777777653    1       223345677999999999999999988

>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=96.24  E-value=0.0012  Score=52.10  Aligned_cols=25  Identities=32%  Similarity=0.256  Sum_probs=22.4

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+..+|+|-|.-|+||||+++.+.+
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999876

>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=96.23  E-value=0.003  Score=54.07  Aligned_cols=46  Identities=17%  Similarity=0.206  Sum_probs=37.0

Q ss_pred             CcccccchhHHHHHHHHhc-------CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE-------GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~-------~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..++|.++.++.|...+..       .+....++..+|+.|+|||.||+.+-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHh
Confidence            4589999999999887642       133466888999999999999999876

>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=96.18  E-value=0.0011  Score=51.35  Aligned_cols=20  Identities=10%  Similarity=0.137  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|.|++|+||||+|+.+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999865

>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=96.12  E-value=0.0015  Score=51.63  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..-|.|.|++|+||||+|+.+-.
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            455667889999999999999987

>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=96.09  E-value=0.0014  Score=53.14  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ||.|+|+.|.|||||.+.+-.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            899999999999999998865

>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=96.07  E-value=0.0013  Score=51.16  Aligned_cols=22  Identities=18%  Similarity=0.154  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|.|++|+||||+|+.+.+.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999999873

>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=96.04  E-value=0.0018  Score=50.49  Aligned_cols=22  Identities=14%  Similarity=0.252  Sum_probs=18.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++++ |.|++|+||||+|+.+.+
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHH
Confidence            4444 779999999999999976

>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=96.02  E-value=0.0016  Score=51.40  Aligned_cols=24  Identities=8%  Similarity=0.147  Sum_probs=21.8

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.++|.|.|++|+||||+|+.+-+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999999999976

>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=96.02  E-value=0.0014  Score=51.02  Aligned_cols=22  Identities=9%  Similarity=0.114  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|.|.|++|+||||+|+.+.+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999873

>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=95.97  E-value=0.002  Score=51.74  Aligned_cols=25  Identities=8%  Similarity=-0.003  Sum_probs=22.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+-.||-+.|++|.||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999999875

>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=95.85  E-value=0.0019  Score=50.68  Aligned_cols=20  Identities=15%  Similarity=0.328  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|+.|+|||||++.+.+
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999977

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

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: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.84  E-value=0.0022  Score=53.79  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=18.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHh
Q 047336          182 LSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+.|+|.|-||+||||+|-++-
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            4788999999999999887653

>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=95.82  E-value=0.002  Score=50.18  Aligned_cols=23  Identities=13%  Similarity=0.118  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+|.|+|+.|+|||||++.+.++
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            46789999999999999998763

>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=95.77  E-value=0.0019  Score=51.59  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999986

>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=95.75  E-value=0.0027  Score=49.83  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.5

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++.|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            4577899999999999999999986

>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=95.73  E-value=0.0022  Score=49.75  Aligned_cols=21  Identities=10%  Similarity=-0.032  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|.|.|++|+||||+|+.+.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366899999999999999986

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=95.73  E-value=0.0036  Score=47.95  Aligned_cols=34  Identities=15%  Similarity=-0.009  Sum_probs=24.8

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.+.+....... -|.++|.+|+|||||...+...
T Consensus         3 ~~~~~~~~~k~~-kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTG-KLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCE-EEEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCC-EEEEECCCCCCHHHHHHHHhCC
Confidence            445555544444 4669999999999999888653

>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=95.72  E-value=0.0084  Score=48.11  Aligned_cols=55  Identities=13%  Similarity=0.074  Sum_probs=35.8

Q ss_pred             CCcEEEEEEcCCCCChhH-HHHHHhccccccccCCeeEEEECCCCCCHHHH--HHHHHHHhh
Q 047336          180 TQLSVVAILDSIGLDKTA-FTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQI--LDTVTWLSR  238 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTT-La~~vy~d~~v~~~F~~~~wV~vs~~~~~~~l--l~~Il~~l~  238 (290)
                      ....||.++|+.|+|||| +||..+.   .+ +....+.+.-..+|.+..+  |+...+.+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~---~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~   64 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQ---FE-QQGKSVMLAAGDTFRAAAVEQLQVWGQRNN   64 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHH---HH-TTTCCEEEECCCTTCHHHHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH---HH-HCCCcEEEEecccccccchhhhhhhhhhcC
Confidence            457899999999999988 5555443   22 3345677777777777543  444444433

>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=95.71  E-value=0.0036  Score=54.60  Aligned_cols=44  Identities=14%  Similarity=0.126  Sum_probs=31.4

Q ss_pred             ccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          161 TVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.|.+...-+....+..+.++.+.+-++|++|+|||++|+.+.+
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHH
Confidence            33443333333344445666778999999999999999999988

>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=95.65  E-value=0.0092  Score=47.74  Aligned_cols=50  Identities=8%  Similarity=0.105  Sum_probs=34.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccC----CeeEEEECCCCCCHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYF----DYLAWIPAPYQYDPDQI  229 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F----~~~~wV~vs~~~~~~~l  229 (290)
                      +.-+++-|.|.+|+|||||+-++..+......+    ...+|++....++...+
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   85 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL   85 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH
Confidence            456788999999999999997765533222222    46788888777764443

>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=95.65  E-value=0.02  Score=45.68  Aligned_cols=57  Identities=12%  Similarity=-0.001  Sum_probs=31.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECC-CCCCHHHHHHHHHHHhh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAP-YQYDPDQILDTVTWLSR  238 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs-~~~~~~~ll~~Il~~l~  238 (290)
                      ++..||.++|+.|+||||.+-++-.... +.. ...+.|+.- ......+=|+...+.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~   61 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLS   61 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CcEEEEEeccccccchhhHhhcccccC
Confidence            3568999999999999885444433222 111 235555542 23344444555544443

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.64  E-value=0.0028  Score=47.79  Aligned_cols=22  Identities=23%  Similarity=0.143  Sum_probs=19.3

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.|+|.+|+|||||.+.+.+++
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999887654

>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=95.63  E-value=0.0026  Score=50.19  Aligned_cols=20  Identities=15%  Similarity=0.331  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|+.|+|||||++.+..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66999999999999999876

>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=95.63  E-value=0.0027  Score=52.63  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=21.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .=.+++|+|+.|+|||||++.+..
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            346899999999999999999965

>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=95.60  E-value=0.0022  Score=51.81  Aligned_cols=24  Identities=17%  Similarity=0.218  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.|+|-|+-|+||||+++.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999998873

>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=95.59  E-value=0.003  Score=51.53  Aligned_cols=23  Identities=17%  Similarity=0.096  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            45899999999999999998876

>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=95.58  E-value=0.0031  Score=51.81  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||++.++.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999999976

>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=95.57  E-value=0.0057  Score=49.39  Aligned_cols=47  Identities=11%  Similarity=-0.050  Sum_probs=35.3

Q ss_pred             HhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC
Q 047336          175 LIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ  223 (290)
Q Consensus       175 L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~  223 (290)
                      |..+=+.-+++-|.|.+|+||||||.++-.  ...++...++|++...+
T Consensus        19 l~GGi~~gsl~li~G~pGsGKT~l~~qia~--~~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          19 CGGGFFKDSIILATGATGTGKTLLVSRFVE--NACANKERAILFAYEES   65 (242)
T ss_dssp             TTSSEESSCEEEEEECTTSSHHHHHHHHHH--HHHTTTCCEEEEESSSC
T ss_pred             hcCCCcCCeEEEEEeCCCCCHHHHHHHHHH--HHHHhccccceeeccCC
Confidence            333434567889999999999999988877  34566777888886543

>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=95.56  E-value=0.0063  Score=51.21  Aligned_cols=27  Identities=19%  Similarity=0.192  Sum_probs=23.0

Q ss_pred             CCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          178 GPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       178 ~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +....-+|||-|..|+|||||+..+..
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~   49 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYN   49 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHH
Confidence            345677999999999999999988765

>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=95.54  E-value=0.0036  Score=53.38  Aligned_cols=25  Identities=12%  Similarity=0.130  Sum_probs=22.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...-+|||.|..|+||||+|+.+..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            5678999999999999999999876

>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=95.54  E-value=0.0035  Score=51.61  Aligned_cols=24  Identities=17%  Similarity=0.102  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .=..++|+|+.|.|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999965

>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=95.52  E-value=0.0065  Score=48.57  Aligned_cols=22  Identities=5%  Similarity=0.043  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|+|-|+.|+||||+++.+.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999988

>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=95.52  E-value=0.003  Score=47.31  Aligned_cols=22  Identities=9%  Similarity=-0.011  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      |.|+|.+|+|||||.+.+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999876543

>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=95.51  E-value=0.0034  Score=51.29  Aligned_cols=23  Identities=13%  Similarity=0.102  Sum_probs=20.8

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            46899999999999999999965

>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=95.51  E-value=0.0034  Score=51.66  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =..++|+|..|.|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999976

>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=95.50  E-value=0.0033  Score=51.67  Aligned_cols=23  Identities=9%  Similarity=0.117  Sum_probs=21.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||++.++-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            46899999999999999999976

>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=95.48  E-value=0.0034  Score=51.93  Aligned_cols=24  Identities=25%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +=.+++|+|..|.|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            356899999999999999999976

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.48  E-value=0.0054  Score=47.02  Aligned_cols=26  Identities=15%  Similarity=0.068  Sum_probs=21.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++---|.++|.+|+|||||...+.+.
T Consensus        14 ~~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhcC
Confidence            33345779999999999999988664

>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=95.43  E-value=0.0036  Score=51.99  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||++.+.-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45899999999999999999975

>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=95.43  E-value=0.0035  Score=52.74  Aligned_cols=24  Identities=25%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +=.+++|+|+.|.|||||++.+..
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            356899999999999999999976

>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=95.42  E-value=0.008  Score=51.27  Aligned_cols=45  Identities=18%  Similarity=0.303  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHHhc------C-CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIE------G-PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~------~-~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .++|.++.++.|.+.+..      + .....++..+|+.|+|||.||+.+-+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHH
Confidence            478999999998886642      1 23355889999999999999997765

>d1ihua2 c.37.1.10 (A:308-586) 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=95.40  E-value=0.0071  Score=50.04  Aligned_cols=33  Identities=18%  Similarity=0.372  Sum_probs=24.1

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHH
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ...+++.+..  ...+||.+.|-||+||||+|-.+
T Consensus         8 ~~~~~~~~~~--~~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2           8 LSALVDDIAR--NEHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             HHHHHHHHHT--TSCEEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHhhc--CCCEEEEEECCCCCCHHHHHHHH
Confidence            3445555553  45889999999999999976555

>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=95.39  E-value=0.0039  Score=51.11  Aligned_cols=23  Identities=17%  Similarity=0.091  Sum_probs=20.9

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            46899999999999999999976

>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=95.30  E-value=0.0039  Score=48.64  Aligned_cols=22  Identities=9%  Similarity=0.264  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.|.|+|+.|+|||||++.+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999886

>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=95.29  E-value=0.0044  Score=50.79  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+++|+|+.|.|||||.+.+..
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            4788999999999999999986

>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=95.24  E-value=0.0046  Score=49.36  Aligned_cols=19  Identities=26%  Similarity=0.403  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~v  202 (290)
                      +|||+|+.|+||||.|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>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=95.23  E-value=0.005  Score=52.70  Aligned_cols=43  Identities=19%  Similarity=0.178  Sum_probs=30.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHh
Q 047336          159 RNTVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      ++++|.+..+..|.-.+....  ..-+-+.|.+|+||||||+.+-
T Consensus         7 ~~I~Gq~~~kral~laa~~~~--~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccC--CCeEEEECCCCccHHHHHHHHH
Confidence            568999988776654333211  1235688999999999999773

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine 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: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.22  E-value=0.005  Score=49.81  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.7

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ++.|+|-|+-|+||||+++.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            678999999999999999999873

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.20  E-value=0.008  Score=48.12  Aligned_cols=25  Identities=16%  Similarity=0.060  Sum_probs=19.3

Q ss_pred             CCcEEEEEEcCCCCChhH-HHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTA-FTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTT-La~~vy~  204 (290)
                      .+.+||.++|+.|+|||| +||..+.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~   33 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALY   33 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999987 4555543

>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=95.19  E-value=0.0049  Score=48.62  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|+|-|+-|+||||+++.+-+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998876

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=95.18  E-value=0.0047  Score=47.80  Aligned_cols=33  Identities=24%  Similarity=0.224  Sum_probs=23.2

Q ss_pred             HHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          171 LLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       171 L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+.|......++ |.++|.+|+|||||.+.+.+
T Consensus         7 ~~~~l~~~~k~~K-I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_           7 MFDKLWGSNKELR-ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             HHGGGTTCSSCEE-EEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHhCCCceEE-EEEECCCCCCHHHHHHHHhc
Confidence            3333433444455 45999999999999998865

>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=95.18  E-value=0.0033  Score=52.99  Aligned_cols=24  Identities=8%  Similarity=0.171  Sum_probs=18.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.+||||.|..|.||||+++.+-+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999987765

>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=95.15  E-value=0.036  Score=44.38  Aligned_cols=52  Identities=12%  Similarity=0.159  Sum_probs=36.9

Q ss_pred             cCCCCcEEEEEEcCCCCChhHHHHHHhccc----cccccCCeeEEEECCCCCCHHH
Q 047336          177 EGPTQLSVVAILDSIGLDKTAFTAEAYNSS----YVKHYFDYLAWIPAPYQYDPDQ  228 (290)
Q Consensus       177 ~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~----~v~~~F~~~~wV~vs~~~~~~~  228 (290)
                      .+=+.-+++-|.|.+|+|||+||.++..+.    .....+....|+.....++...
T Consensus        32 GGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          32 GGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             SSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHH
Confidence            344567899999999999999998775422    1223456788888777776443

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.14  E-value=0.0057  Score=49.00  Aligned_cols=37  Identities=16%  Similarity=0.112  Sum_probs=25.7

Q ss_pred             cEEEEEE-cCCCCChhHHHHHHhccccccccCCeeEEEEC
Q 047336          182 LSVVAIL-DSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPA  220 (290)
Q Consensus       182 ~~Vi~Iv-GmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~v  220 (290)
                      .+||+|+ |-||+||||+|..+-.  ...++=..++.|..
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~--~la~~g~~VlliD~   38 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGV--ALAQLGHDVTIVDA   38 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHH--HHHHTTCCEEEEEC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHH--HHHhCCCCEEEEeC
Confidence            4799999 7799999999987765  22223234566654

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.08  E-value=0.0058  Score=46.34  Aligned_cols=21  Identities=14%  Similarity=0.071  Sum_probs=18.5

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|.+|+|||||.+.+.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            669999999999999998663

>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=95.08  E-value=0.0054  Score=46.51  Aligned_cols=22  Identities=14%  Similarity=0.211  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|.+|+|||||+....++
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999877654

>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=95.06  E-value=0.0056  Score=50.16  Aligned_cols=23  Identities=13%  Similarity=0.083  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46999999999999999999976

>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=95.05  E-value=0.0057  Score=50.19  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999999987

>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=95.01  E-value=0.0059  Score=48.52  Aligned_cols=20  Identities=25%  Similarity=0.305  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCCChhHHHHHH
Q 047336          183 SVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      -+|||.|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999866

>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=94.93  E-value=0.0073  Score=45.83  Aligned_cols=20  Identities=5%  Similarity=0.179  Sum_probs=17.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            66999999999999986654

>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=94.92  E-value=0.0064  Score=50.29  Aligned_cols=23  Identities=17%  Similarity=0.141  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||++.+.-
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHC
Confidence            45899999999999999999987

>d1tmka_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.89  E-value=0.016  Score=46.37  Aligned_cols=22  Identities=18%  Similarity=0.072  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..|+|-|+-|+||||+++.+.+
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHH
Confidence            5789999999999999999987

>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=94.88  E-value=0.0099  Score=48.83  Aligned_cols=44  Identities=18%  Similarity=0.147  Sum_probs=34.7

Q ss_pred             cccccchhHHHHHHHHhcC-CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          160 NTVGLDDRMEELLDLLIEG-PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       160 ~~vG~e~~~~~L~~~L~~~-~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.||....+.++.+.+..- ..+.+ |-|.|..|+|||++|+.++.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~p-vlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECP-VLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSC-EEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHH
Confidence            3678888888888888752 23344 46889999999999999986

>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=94.87  E-value=0.0046  Score=50.35  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999976

>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=94.85  E-value=0.007  Score=50.33  Aligned_cols=22  Identities=14%  Similarity=0.137  Sum_probs=18.2

Q ss_pred             CcEEEEEEcCCCCChhHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ..++|.+.|-||+||||+|-.+
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHH
Confidence            3678889999999999976654

>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=94.84  E-value=0.042  Score=43.99  Aligned_cols=51  Identities=14%  Similarity=0.273  Sum_probs=35.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcccccc----ccCCeeEEEECCCCCCHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVK----HYFDYLAWIPAPYQYDPDQIL  230 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~----~~F~~~~wV~vs~~~~~~~ll  230 (290)
                      +.-+++-|.|.+|+||||||.++..+....    ......+|+.....++...+.
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            456799999999999999998765432111    123568888888777765443

>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=94.84  E-value=0.0076  Score=46.03  Aligned_cols=21  Identities=14%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .|+|+|.+|+|||||.+.+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999998875

>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=94.83  E-value=0.0069  Score=46.47  Aligned_cols=22  Identities=14%  Similarity=0.247  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||+..+.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4679999999999999986654

>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=94.82  E-value=0.0075  Score=46.01  Aligned_cols=20  Identities=20%  Similarity=0.343  Sum_probs=17.4

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|.+|+|||||.....+
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            57999999999999987665

>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=94.79  E-value=0.0054  Score=47.35  Aligned_cols=20  Identities=15%  Similarity=0.169  Sum_probs=18.7

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=94.77  E-value=0.0069  Score=48.37  Aligned_cols=22  Identities=9%  Similarity=0.196  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|.|+|+.|+|||||.+.+..
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4677999999999999999876

>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=94.76  E-value=0.0085  Score=48.37  Aligned_cols=25  Identities=20%  Similarity=0.308  Sum_probs=22.4

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .++|+-|.|+-|.|||||.+.+.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999998764

>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=94.76  E-value=0.0082  Score=48.21  Aligned_cols=25  Identities=20%  Similarity=0.161  Sum_probs=16.2

Q ss_pred             CCcEEEEEEcCCCCChhH-HHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTA-FTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTT-La~~vy~  204 (290)
                      ....||.+||+.|+|||| +||..+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~   35 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYF   35 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999988 5555543

>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=94.75  E-value=0.0079  Score=46.61  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||++.+.++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4779999999999999887653

>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=94.69  E-value=0.0081  Score=47.17  Aligned_cols=23  Identities=13%  Similarity=0.070  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +.|.|+|.+|+|||||...+.++
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999988754

>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=94.68  E-value=0.008  Score=45.70  Aligned_cols=21  Identities=14%  Similarity=0.292  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|.+|+|||||++.+.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999987654

>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=94.67  E-value=0.005  Score=51.03  Aligned_cols=24  Identities=17%  Similarity=0.073  Sum_probs=21.1

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +=..++|+|..|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            346899999999999999999864

>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=94.67  E-value=0.0078  Score=45.57  Aligned_cols=20  Identities=15%  Similarity=0.217  Sum_probs=17.8

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.|+|.+|+|||||++.+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999997764

>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=94.67  E-value=0.0084  Score=45.78  Aligned_cols=22  Identities=23%  Similarity=0.212  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|..|+|||||++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4779999999999999987653

>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=94.65  E-value=0.0098  Score=45.48  Aligned_cols=24  Identities=13%  Similarity=0.227  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999863

>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=94.65  E-value=0.01  Score=47.68  Aligned_cols=55  Identities=15%  Similarity=-0.015  Sum_probs=31.2

Q ss_pred             CCcEEEEEEcCCCCChhHH-HHHHhccccccccCCeeEEEECCCCCCHH--HHHHHHHHHhh
Q 047336          180 TQLSVVAILDSIGLDKTAF-TAEAYNSSYVKHYFDYLAWIPAPYQYDPD--QILDTVTWLSR  238 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTL-a~~vy~d~~v~~~F~~~~wV~vs~~~~~~--~ll~~Il~~l~  238 (290)
                      .+..||..+|+.|+||||- ||..+. . .++. ..++.|+. ..|.+.  +=|+...+.+.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~-~-~~~~-~kV~lit~-Dt~R~gA~eQL~~~a~~l~   66 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKM-F-VDEG-KSVVLAAA-DTFRAAAIEQLKIWGERVG   66 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHH-H-HHTT-CCEEEEEE-CTTCHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH-H-HHCC-CceEEEee-cccccchhHHHHHHhhhcC
Confidence            5678999999999999884 454433 2 2222 23444443 344443  33444444443

>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=94.63  E-value=0.008  Score=45.93  Aligned_cols=21  Identities=14%  Similarity=0.324  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||.+.+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999988765

>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=94.59  E-value=0.0086  Score=45.70  Aligned_cols=21  Identities=19%  Similarity=0.270  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||...+.+
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            478999999999999997654

>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=94.59  E-value=0.02  Score=45.27  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.|+|-|+.|+||||+++.+.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999999887

>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=94.58  E-value=0.0099  Score=45.43  Aligned_cols=22  Identities=32%  Similarity=0.341  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      --|.|+|.+|+|||||.....+
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHc
Confidence            3478999999999999988654

>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=94.57  E-value=0.01  Score=45.18  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.|+|.+|+|||||.+.+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            669999999999999887653

>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=94.56  E-value=0.009  Score=44.41  Aligned_cols=22  Identities=18%  Similarity=0.042  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|.+|+|||||...+-+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999887764

>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=94.54  E-value=0.011  Score=45.50  Aligned_cols=24  Identities=17%  Similarity=0.206  Sum_probs=21.2

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      ...|+|+|..|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998864

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.54  E-value=0.0098  Score=47.57  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=18.9

Q ss_pred             EEEEEE-cCCCCChhHHHHHHhc
Q 047336          183 SVVAIL-DSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~Iv-GmgGiGKTTLa~~vy~  204 (290)
                      +||+|+ +-||+||||+|..+-.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~   25 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSV   25 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH
Confidence            689999 5599999999988755

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.54  E-value=0.021  Score=43.30  Aligned_cols=33  Identities=15%  Similarity=0.061  Sum_probs=23.0

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.+++..  ... -|.|+|.+|+|||||...+-++
T Consensus         6 ~~~~~~~~--k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFNH--QEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHTT--SCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHhCC--CeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            44444442  234 4669999999999999877654

>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=94.51  E-value=0.009  Score=45.35  Aligned_cols=22  Identities=9%  Similarity=0.267  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|.+|+|||||+..+.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999987653

>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=94.42  E-value=0.0076  Score=49.09  Aligned_cols=23  Identities=13%  Similarity=0.205  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45899999999999999998865

>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=94.41  E-value=0.0076  Score=46.62  Aligned_cols=21  Identities=10%  Similarity=0.112  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999865

>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=94.39  E-value=0.01  Score=45.16  Aligned_cols=21  Identities=19%  Similarity=0.169  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|.+|+|||||+....+
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999997654

>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=94.39  E-value=0.0056  Score=50.26  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=21.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      =.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            46899999999999999999976

>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=94.37  E-value=0.01  Score=45.45  Aligned_cols=21  Identities=10%  Similarity=0.214  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||+..+.+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999987654

>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=94.37  E-value=0.0098  Score=45.69  Aligned_cols=22  Identities=5%  Similarity=0.075  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999998864

>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=94.35  E-value=0.011  Score=46.17  Aligned_cols=22  Identities=9%  Similarity=0.241  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4779999999999999977653

>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=94.31  E-value=0.011  Score=45.09  Aligned_cols=21  Identities=10%  Similarity=0.197  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|..|+|||||+..+.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999987664

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.01  Score=45.44  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||+..+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35679999999999999876653

>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=94.30  E-value=0.011  Score=45.35  Aligned_cols=22  Identities=14%  Similarity=0.223  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      --|.|+|..|+|||||+..+.+
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3478999999999999987655

>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=94.28  E-value=0.011  Score=44.86  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|-+|+|||||+....++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999877653

>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=94.28  E-value=0.011  Score=45.05  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=17.9

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.++|.+|+|||+|.+...++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999877653

>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=94.23  E-value=0.011  Score=45.10  Aligned_cols=21  Identities=19%  Similarity=0.311  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||.+...+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            477999999999999987655

>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=94.22  E-value=0.063  Score=41.32  Aligned_cols=52  Identities=12%  Similarity=0.115  Sum_probs=33.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccc----cCCeeEEEECCCCCCHHHHHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKH----YFDYLAWIPAPYQYDPDQILD  231 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~----~F~~~~wV~vs~~~~~~~ll~  231 (290)
                      ..-.++-|.|.+|+||||||.++..+.....    .+....++..........+..
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLA   76 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHH
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHH
Confidence            3456889999999999999987754322221    234466677666666544433

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.17  E-value=0.013  Score=44.35  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-|.|+|..|+|||||.....+
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4578999999999999988654

>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=94.15  E-value=0.012  Score=46.25  Aligned_cols=22  Identities=14%  Similarity=0.072  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||...+.++
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999888664

>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=94.10  E-value=0.014  Score=44.20  Aligned_cols=21  Identities=19%  Similarity=0.385  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhcc
Q 047336          185 VAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d  205 (290)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999877653

>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=94.04  E-value=0.037  Score=42.07  Aligned_cols=30  Identities=17%  Similarity=0.151  Sum_probs=24.6

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhcccccc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVK  209 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~  209 (290)
                      ..-.+|...|.=|.||||++|.+.+...+.
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            345699999999999999999998854443

>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=94.04  E-value=0.015  Score=46.96  Aligned_cols=22  Identities=5%  Similarity=-0.068  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+|||.|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998865

>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=94.03  E-value=0.018  Score=49.96  Aligned_cols=46  Identities=13%  Similarity=0.127  Sum_probs=33.9

Q ss_pred             CcccccchhHHHHHHHHh----------------------------cCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLI----------------------------EGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~----------------------------~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+||.++.++.+...+.                            +.+.....+-.+|+.|+|||.||+.+-.
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHh
Confidence            458999999888876552                            0122355577889999999999997743

>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=94.02  E-value=0.017  Score=44.62  Aligned_cols=24  Identities=13%  Similarity=0.061  Sum_probs=19.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +.--|.|+|.+|+|||||.+...+
T Consensus         4 ~~iKivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           4 QAIKCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEEECCCCCCHHHHHHHHHh
Confidence            344578999999999999977655

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.01  E-value=0.014  Score=44.36  Aligned_cols=20  Identities=30%  Similarity=0.434  Sum_probs=17.5

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|..|+|||+|.+...+
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            67999999999999987654

>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=93.96  E-value=0.032  Score=45.83  Aligned_cols=41  Identities=15%  Similarity=0.200  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          166 DRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       166 ~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..+.++...+......---|.++|..|+|||||...++...
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            34455666666554445567899999999999999998754

>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=93.95  E-value=0.011  Score=45.22  Aligned_cols=25  Identities=16%  Similarity=-0.032  Sum_probs=21.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ++...|+|+|.+++|||||.+.+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3477899999999999999998865

>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=93.89  E-value=0.015  Score=44.25  Aligned_cols=21  Identities=10%  Similarity=0.199  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|..|+|||||.....+
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            356899999999999987654

>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=93.89  E-value=0.052  Score=43.00  Aligned_cols=57  Identities=12%  Similarity=0.078  Sum_probs=35.8

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccc--------------cCCeeEEEECCCCCCHHHHHHHHHHHh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKH--------------YFDYLAWIPAPYQYDPDQILDTVTWLS  237 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~--------------~F~~~~wV~vs~~~~~~~ll~~Il~~l  237 (290)
                      ..-.++-|.|.+|+||||+|..+..+.....              ....+.|++....++.. ..+.+...+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            3467999999999999999988754322211              11246788876666543 333444443

>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=93.89  E-value=0.015  Score=43.99  Aligned_cols=20  Identities=15%  Similarity=0.104  Sum_probs=17.2

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|.+|+|||||...+..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            56899999999999987654

>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=93.79  E-value=0.016  Score=44.12  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|.+|+|||||+....+
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999987644

>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=93.74  E-value=0.016  Score=44.45  Aligned_cols=22  Identities=14%  Similarity=0.070  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.|+|.+|+|||||+....++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999776553

>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=93.72  E-value=0.024  Score=44.94  Aligned_cols=40  Identities=18%  Similarity=0.170  Sum_probs=28.5

Q ss_pred             cchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          164 LDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       164 ~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+...++|.+.+..+. -...+-++|+.|+||||+|+.+.+
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHH
Confidence            3455677777776543 123477899999999999996654

>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=93.70  E-value=0.017  Score=44.34  Aligned_cols=20  Identities=15%  Similarity=0.325  Sum_probs=17.6

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|.+|+|||||.+.+-+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999997654

>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=93.67  E-value=0.016  Score=44.85  Aligned_cols=23  Identities=13%  Similarity=0.089  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      --|.|+|.+|+|||||.+...++
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhhC
Confidence            34789999999999999876553

>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=93.66  E-value=0.017  Score=44.40  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|+|+|..|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4799999999999999888753

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=93.65  E-value=0.014  Score=44.58  Aligned_cols=26  Identities=12%  Similarity=0.075  Sum_probs=21.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      .+++ |.++|.+|+|||||.+.+.++.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3466 4599999999999999987644

>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=93.64  E-value=0.011  Score=45.13  Aligned_cols=22  Identities=18%  Similarity=0.300  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|.+|+|||||.....++
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999877553

>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=93.54  E-value=0.018  Score=44.37  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|..|+|||||++.+.+
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999987765

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.53  E-value=0.018  Score=44.33  Aligned_cols=20  Identities=10%  Similarity=0.057  Sum_probs=17.2

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|-+|+|||||.+..-.
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            56899999999999987644

>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=93.52  E-value=0.019  Score=43.89  Aligned_cols=21  Identities=14%  Similarity=0.237  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999987754

>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=93.50  E-value=0.019  Score=42.98  Aligned_cols=21  Identities=14%  Similarity=0.072  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|+++|.+|+|||||...+..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999988864

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.45  E-value=0.019  Score=44.60  Aligned_cols=19  Identities=16%  Similarity=0.221  Sum_probs=16.9

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~v  202 (290)
                      -|.++|.+|+|||||++..
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999877

>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=93.45  E-value=0.023  Score=43.23  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      --|.++|-+|+|||||++.+.+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4577999999999999988654

>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=93.40  E-value=0.023  Score=43.24  Aligned_cols=22  Identities=18%  Similarity=0.392  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|.++|..|+|||||++...++
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999987653

>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=93.34  E-value=0.022  Score=43.41  Aligned_cols=23  Identities=22%  Similarity=0.262  Sum_probs=18.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +--|.++|.+|+|||||+..+.+
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHh
Confidence            34478999999999999976544

>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=93.14  E-value=0.057  Score=44.69  Aligned_cols=49  Identities=24%  Similarity=0.222  Sum_probs=38.1

Q ss_pred             CCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHH
Q 047336          178 GPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQ  228 (290)
Q Consensus       178 ~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~  228 (290)
                      +-+.-+++-|.|..|+||||||-.+....  +..=..++||..-..|+...
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~--q~~g~~~vyIDtE~~~~~e~  104 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDPDY  104 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHH--HHTTCEEEEEESSCCCCHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHH--hcCCCEEEEEECCccCCHHH
Confidence            44567899999999999999998877743  33334689999888888765

>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=93.09  E-value=0.023  Score=43.70  Aligned_cols=21  Identities=10%  Similarity=0.148  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|.+|+|||||.....+
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~   27 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLT   27 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            467899999999999986655

>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=92.90  E-value=0.042  Score=48.91  Aligned_cols=46  Identities=13%  Similarity=0.187  Sum_probs=34.5

Q ss_pred             CcccccchhHHHHHHHHhc--------C----CCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          159 RNTVGLDDRMEELLDLLIE--------G----PTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       159 ~~~vG~e~~~~~L~~~L~~--------~----~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+||.++.++.|.-.+..        +    +-..+=|-++|+.|+|||.||+.+-.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            3589999999888776631        1    11234567899999999999999876

>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=92.88  E-value=0.03  Score=43.09  Aligned_cols=20  Identities=15%  Similarity=0.117  Sum_probs=17.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |.++|..|+|||||++...+
T Consensus         5 ivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56899999999999987655

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=92.81  E-value=0.027  Score=45.27  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +||+|+|-.+.|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            5799999999999999987743

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.70  E-value=0.028  Score=46.86  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=21.0

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHh
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      .+++-|+|+|.+|.|||||+-.+.
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll   27 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERIL   27 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHH
Confidence            457889999999999999998764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.61  E-value=0.026  Score=43.49  Aligned_cols=20  Identities=15%  Similarity=0.159  Sum_probs=17.1

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |-++|-+|+|||||.+....
T Consensus         5 iv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            56899999999999987744

>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=92.60  E-value=0.039  Score=43.51  Aligned_cols=41  Identities=15%  Similarity=0.136  Sum_probs=26.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHH-HhccccccccCCeeEEEECCC
Q 047336          180 TQLSVVAILDSIGLDKTAFTAE-AYNSSYVKHYFDYLAWIPAPY  222 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~-vy~d~~v~~~F~~~~wV~vs~  222 (290)
                      +.-.++-|.|.+|+|||+||.+ +++  .....=....|++...
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~--~~~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYN--GIIEFDEPGVFVTFEE   65 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH--HHHHHCCCEEEEESSS
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhcCCCcccccccC
Confidence            4467888999999999999965 554  2222223456666543

>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=92.59  E-value=0.034  Score=43.11  Aligned_cols=21  Identities=10%  Similarity=0.074  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.++|..|+|||||+....+
T Consensus         5 KvvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            366899999999999876544

>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=92.49  E-value=0.019  Score=43.85  Aligned_cols=21  Identities=14%  Similarity=0.186  Sum_probs=8.8

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|.|+|-+|+|||||...+.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999975554

>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=92.42  E-value=0.012  Score=44.05  Aligned_cols=22  Identities=14%  Similarity=0.219  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998753

>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=92.42  E-value=0.077  Score=43.70  Aligned_cols=46  Identities=22%  Similarity=0.178  Sum_probs=34.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPD  227 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~  227 (290)
                      +.-+++-|+|.+|+||||||-.+....+-..  ..++|+..-..|+..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~   97 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI   97 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH
Confidence            4457899999999999999988887443222  357888887777764

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.32  E-value=0.068  Score=44.39  Aligned_cols=34  Identities=21%  Similarity=0.185  Sum_probs=27.6

Q ss_pred             HHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcc
Q 047336          172 LDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       172 ~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .+.|..-+..+.||+|+|.-+.||+||+..++..
T Consensus        22 l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          22 LKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            3445444456999999999999999999999873

>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=92.32  E-value=0.061  Score=43.27  Aligned_cols=35  Identities=17%  Similarity=0.236  Sum_probs=26.7

Q ss_pred             hHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          167 RMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       167 ~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..+.|.++|..     ....++|..|+|||||...+..+.
T Consensus        85 g~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          85 GIEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             THHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             hHhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcchh
Confidence            45677777742     255688999999999999997654

>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=92.23  E-value=0.039  Score=46.93  Aligned_cols=53  Identities=15%  Similarity=0.070  Sum_probs=32.7

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCC---C--CHHHHHHHHHHHhh
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQ---Y--DPDQILDTVTWLSR  238 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~---~--~~~~ll~~Il~~l~  238 (290)
                      .++-++|++|+|||.||+.+-.  .+...+.. +-+..|.-   |  +...-+++++++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~--~~~~~~~~-~~~~~~~~~~~~~G~~e~~~~~~f~~a~  181 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGE--ALGGKDKY-ATVRFGEPLSGYNTDFNVFVDDIARAML  181 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHH--HHHTTSCC-EEEEBSCSSTTCBCCHHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH--HhcCCCCe-EEEEhhHhhhcccchHHHHHHHHHHHHh
Confidence            4555689999999999999987  44332221 22343331   1  44556677776654

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=92.12  E-value=0.039  Score=45.66  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             cEEEEEEcCCCCChhHHHHHH
Q 047336          182 LSVVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~v  202 (290)
                      ++-|+|+|..|.|||||+..+
T Consensus         2 iRNv~iiGh~~~GKTtL~e~l   22 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEAL   22 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHH
Confidence            577999999999999999876

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.75  E-value=0.042  Score=43.84  Aligned_cols=22  Identities=9%  Similarity=0.024  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-|-++|.+|+|||||++....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4567999999999999987643

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.72  E-value=0.049  Score=42.55  Aligned_cols=22  Identities=9%  Similarity=0.009  Sum_probs=18.0

Q ss_pred             EEEEEEcCC-CCChhHHHHHHhc
Q 047336          183 SVVAILDSI-GLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmg-GiGKTTLa~~vy~  204 (290)
                      +.+-|.|-| |+||||++-.+-.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~   24 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQ   24 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            457789998 9999998877665

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

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: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=91.48  E-value=0.091  Score=44.79  Aligned_cols=24  Identities=8%  Similarity=0.086  Sum_probs=21.3

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +-.|.|=|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            567888899999999999999984

>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=91.27  E-value=0.12  Score=42.63  Aligned_cols=46  Identities=17%  Similarity=0.107  Sum_probs=35.9

Q ss_pred             CCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHH
Q 047336          180 TQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPD  227 (290)
Q Consensus       180 ~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~  227 (290)
                      +.-+++-|+|.+|+||||||-.+....+-..  ..++|+..-..|+..
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~  100 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV  100 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH
Confidence            4567999999999999999988877433222  358999988888874

>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=90.88  E-value=0.092  Score=41.40  Aligned_cols=36  Identities=14%  Similarity=0.234  Sum_probs=28.2

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ...+..+| .+.++...+.++|+++.|||++|..+.+
T Consensus        40 l~~l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHH-cCCCCceEEEEECCCCccHHHHHHHHHH
Confidence            44555555 4557778999999999999999987765

>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=90.80  E-value=0.15  Score=41.46  Aligned_cols=53  Identities=9%  Similarity=0.058  Sum_probs=33.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHHHHhh
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVTWLSR  238 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il~~l~  238 (290)
                      .++.|.|.+|+||||++..+--+......+ .+++++  -..+...+...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s--~E~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAM--LEESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEE--SSSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEee--eccchhhHHhHHHHHhh
Confidence            467788999999999987665421122223 244444  34557777777776554

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=90.72  E-value=0.06  Score=41.22  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -|+|+|..+.|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999998864

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.70  E-value=0.14  Score=42.38  Aligned_cols=65  Identities=15%  Similarity=0.190  Sum_probs=43.7

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCC-CHHHHHHHHHHH
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQY-DPDQILDTVTWL  236 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~-~~~~ll~~Il~~  236 (290)
                      +.++.|.-= .+=.-++|+|..|+|||||+..+-++. .+.+=++++++-+.+.. .+.++.+++.+.
T Consensus        57 raID~l~pi-gkGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPY-AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCE-ETTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeeccc-cCCCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            456655521 113458999999999999988887631 22334567888888765 456777777653

>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=90.51  E-value=0.067  Score=43.59  Aligned_cols=22  Identities=18%  Similarity=0.212  Sum_probs=17.9

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .+.-|+|.+|+||||||-.+.-
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            4666899999999999976643

>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=90.50  E-value=0.47  Score=36.83  Aligned_cols=69  Identities=13%  Similarity=-0.053  Sum_probs=41.3

Q ss_pred             HHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhcccc--ccccCCeeEEEEC-CCCCCHHHHHHHHHHHhhhc
Q 047336          168 MEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSY--VKHYFDYLAWIPA-PYQYDPDQILDTVTWLSRRN  240 (290)
Q Consensus       168 ~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~--v~~~F~~~~wV~v-s~~~~~~~ll~~Il~~l~~~  240 (290)
                      ++-|.+++..+  ...-+-++|.+|+||||+|..+-+...  -..|-|. .++.- +....++.+ +++.+.+...
T Consensus         3 ~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~I-R~i~~~~~~~   74 (198)
T d2gnoa2           3 LETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSC
T ss_pred             HHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHH-HHHHHHHhhC
Confidence            44455555544  478889999999999999998766221  1223343 33332 234455555 4566666543

>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=90.26  E-value=0.075  Score=45.80  Aligned_cols=65  Identities=12%  Similarity=0.026  Sum_probs=36.4

Q ss_pred             chhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccc-cccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          165 DDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSS-YVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       165 e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~-~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      +..+..+...+.     -++.-|.|.+|.||||++..+...- +....=..++.++.+..--...+...+.
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~  216 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLG  216 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHH
Confidence            445555554443     3477789999999999886554311 1111113467777665444444444443

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

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: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=90.25  E-value=0.069  Score=45.50  Aligned_cols=23  Identities=30%  Similarity=0.146  Sum_probs=20.6

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      +..|+|=|.-|+||||+++.+-+
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            55689999999999999999976

>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=89.87  E-value=0.16  Score=41.81  Aligned_cols=36  Identities=8%  Similarity=0.041  Sum_probs=28.5

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      ..+..||....++-..+-++|+|+.||||++..+.+
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            345556666656788889999999999999988765

>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=89.69  E-value=0.083  Score=44.82  Aligned_cols=20  Identities=20%  Similarity=0.321  Sum_probs=18.3

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |-|.|..|+|||||.+.+.+
T Consensus       169 ili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGG
T ss_pred             EEEEeeccccchHHHHHHhh
Confidence            67899999999999999887

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.31  E-value=0.094  Score=41.28  Aligned_cols=20  Identities=25%  Similarity=0.257  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -|+|+|-++.|||||+..+.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            37899999999999998773

>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=88.90  E-value=0.11  Score=43.39  Aligned_cols=48  Identities=17%  Similarity=-0.013  Sum_probs=31.9

Q ss_pred             HHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEE
Q 047336          170 ELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIP  219 (290)
Q Consensus       170 ~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~  219 (290)
                      ++++.|.-= .+=.-++|+|..|+|||||+..+.++.. ..+-++++.+.
T Consensus        32 r~ID~l~Pi-grGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~   79 (289)
T d1xpua3          32 RVLDLASPI-GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVL   79 (289)
T ss_dssp             HHHHHHSCC-BTTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEE
T ss_pred             eeeeecccc-cCCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEE
Confidence            577776531 1235789999999999999998887432 23445554443

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.81  E-value=0.12  Score=44.20  Aligned_cols=34  Identities=12%  Similarity=0.248  Sum_probs=26.0

Q ss_pred             HHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHh
Q 047336          169 EELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       169 ~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      +.+.+++. ...+++=|+|+|..|.|||||+-.+.
T Consensus         5 ~~~~~lm~-~~~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2           5 DQMRSLMD-KVTNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             HHHHHHHH-CGGGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             HHHHHHhc-CcccCcEEEEEeCCCCcHHHHHHHHH
Confidence            44555444 44568889999999999999997664

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

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: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=88.28  E-value=0.17  Score=43.04  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=20.5

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhcc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      +-.|+|=|.-|+||||+++.+-+.
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            345788899999999999999874

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=87.74  E-value=0.13  Score=42.35  Aligned_cols=22  Identities=9%  Similarity=0.092  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCChhHHHHHHhcc
Q 047336          184 VVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .|||||++.+|||||-..+-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999987753

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=87.10  E-value=0.048  Score=41.54  Aligned_cols=20  Identities=20%  Similarity=0.159  Sum_probs=16.9

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      +..|+|+.|+||||+...++
T Consensus        26 ~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            44578999999999998875

>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=87.05  E-value=0.16  Score=39.03  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-|.|.|..|+||||||-.+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            3467889999999999987665

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=86.49  E-value=0.16  Score=42.13  Aligned_cols=23  Identities=17%  Similarity=0.157  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCChhHHHHHHhcc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNS  205 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d  205 (290)
                      .-|||||.+.+|||||-..+-+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            35999999999999999998864

>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=86.36  E-value=0.19  Score=38.60  Aligned_cols=21  Identities=19%  Similarity=0.254  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHHhc
Q 047336          184 VVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -+-|.|..|+||||||-.+..
T Consensus        17 gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            456889999999999987665

>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=85.76  E-value=0.47  Score=41.09  Aligned_cols=42  Identities=14%  Similarity=0.294  Sum_probs=30.3

Q ss_pred             ccccchhHHHHHHHHhcCCCCcEEEEEEcCCCCChhHHHHHHhc
Q 047336          161 TVGLDDRMEELLDLLIEGPTQLSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       161 ~vG~e~~~~~L~~~L~~~~~~~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      -.|.....-+.++.+....  -..|-|.|+.|.||||....+.+
T Consensus       139 ~LG~~~~~~~~l~~l~~~~--~GliLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         139 SLGMTAHNHDNFRRLIKRP--HGIILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             GSCCCHHHHHHHHHHHTSS--SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hhcccHHHHHHHHHHHhhh--hceEEEEcCCCCCccHHHHHHhh
Confidence            3566655555555555443  67888999999999998877766

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=85.59  E-value=0.23  Score=40.72  Aligned_cols=26  Identities=8%  Similarity=0.072  Sum_probs=22.3

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccc
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..-.|+|+|++.+||+||+..+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            45568999999999999999998854

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.29  E-value=0.24  Score=43.12  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.0

Q ss_pred             cEEEEEEcCCCCChhHHHHHHhc
Q 047336          182 LSVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       182 ~~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .--|+|+|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            44589999999999999998874

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=85.26  E-value=0.2  Score=41.83  Aligned_cols=20  Identities=15%  Similarity=0.287  Sum_probs=18.1

Q ss_pred             EEEEcCCCCChhHHHHHHhc
Q 047336          185 VAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~  204 (290)
                      |||||.+.+|||||-..+-+
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            89999999999999998843

>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=85.22  E-value=0.22  Score=37.99  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCChhHHHHHHhc
Q 047336          183 SVVAILDSIGLDKTAFTAEAYN  204 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~  204 (290)
                      .-+-|.|..|+||||||-....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            3466899999999999977665

>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=85.19  E-value=0.16  Score=41.69  Aligned_cols=15  Identities=27%  Similarity=0.322  Sum_probs=12.4

Q ss_pred             EEEEcCCCCChhHHH
Q 047336          185 VAILDSIGLDKTAFT  199 (290)
Q Consensus       185 i~IvGmgGiGKTTLa  199 (290)
                      +-|.|.+|.||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            568899999999753

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=85.19  E-value=0.092  Score=42.34  Aligned_cols=22  Identities=9%  Similarity=0.117  Sum_probs=18.0

Q ss_pred             EEEEcCCCCChhHHHHHHhccc
Q 047336          185 VAILDSIGLDKTAFTAEAYNSS  206 (290)
Q Consensus       185 i~IvGmgGiGKTTLa~~vy~d~  206 (290)
                      ..++|..|+|||||...+..+.
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEECCCCccHHHHHHhhccHh
Confidence            3488999999999999998754

>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=84.72  E-value=0.46  Score=33.95  Aligned_cols=48  Identities=15%  Similarity=0.124  Sum_probs=31.9

Q ss_pred             CcEEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCCCHHHHHHHHH
Q 047336          181 QLSVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQYDPDQILDTVT  234 (290)
Q Consensus       181 ~~~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~~~~~ll~~Il  234 (290)
                      +-++.-|+++-|.|||+++-..+.      +...++.+.++...-.....+.+-
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~------~~~~~vli~~P~~~l~~q~~~~~~   54 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA------AQGYKVLVLNPSVAATLGFGAYMS   54 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH------TTTCCEEEEESCHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH------HcCCcEEEEcChHHHHHHHHHHHH
Confidence            467778899999999998876654      234567777765443344444433

>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=83.54  E-value=0.22  Score=41.16  Aligned_cols=15  Identities=27%  Similarity=0.339  Sum_probs=12.2

Q ss_pred             EEEEcCCCCChhHHH
Q 047336          185 VAILDSIGLDKTAFT  199 (290)
Q Consensus       185 i~IvGmgGiGKTTLa  199 (290)
                      +-|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            457799999999854

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=83.14  E-value=0.4  Score=39.44  Aligned_cols=40  Identities=10%  Similarity=-0.003  Sum_probs=28.6

Q ss_pred             EEEEEEcCCCCChhHHHHHHhccccccccCCeeEEEECCCCC
Q 047336          183 SVVAILDSIGLDKTAFTAEAYNSSYVKHYFDYLAWIPAPYQY  224 (290)
Q Consensus       183 ~Vi~IvGmgGiGKTTLa~~vy~d~~v~~~F~~~~wV~vs~~~  224 (290)
                      .-++|+|..|+|||+|+...-.+  ...+-+.++++-+....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~  107 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKA  107 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCH
T ss_pred             ceEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchh
Confidence            44788999999999999865442  23344577888777764

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=82.82  E-value=0.33  Score=37.74  Aligned_cols=20  Identities=25%  Similarity=0.263  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -|+|+|-.+.|||||+..+.
T Consensus         5 ni~iiGHvd~GKSTL~~~l~   24 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAIT   24 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            37899999999999998664

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=81.56  E-value=0.39  Score=36.86  Aligned_cols=20  Identities=15%  Similarity=0.240  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCChhHHHHHHh
Q 047336          184 VVAILDSIGLDKTAFTAEAY  203 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~vy  203 (290)
                      -|+|+|-.+.|||||+..+-
T Consensus         7 nIaiiGhvd~GKSTL~~~L~   26 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALT   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeccCCcHHHHHHHHH
Confidence            47999999999999998884

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=81.50  E-value=0.37  Score=38.07  Aligned_cols=19  Identities=5%  Similarity=0.230  Sum_probs=16.6

Q ss_pred             EEEEEcCCCCChhHHHHHH
Q 047336          184 VVAILDSIGLDKTAFTAEA  202 (290)
Q Consensus       184 Vi~IvGmgGiGKTTLa~~v  202 (290)
                      -|+|+|-.+.|||||+..+
T Consensus         5 Ni~viGHVd~GKTTL~~~L   23 (224)
T d1jnya3           5 NLIVIGHVDHGKSTLVGRL   23 (224)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEecCCCCHHHHHHHH
Confidence            3789999999999999755