Citrus Sinensis ID: 038742

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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---
Protein Sequence
MGNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
Secondary Structure (PSIPRED)
cccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHccccHHHHHHHHHHHHccccEEEc
Secondary Structure Prediction (SSPRO)
cccEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHcccccEEcccccccccccccccccEccHHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccEEEc
Coil and Loop (DISEMBL)
mgnacsvsfscddtiSHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEeeilggfcsgnsierhkYGKRVVESLKNVQSLrkegdfkdvaqtvpenpvderplppavvgfqSTLDRVWRClteepvgivglhgmggvgkTTLLTQINNsflhtsnnfDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
Flexible Loop (DISEMBL)
MGNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQvqgwlsrvqdvekEVPRLLAEiigkeeeilggfcsgnsierhkYGKRVVESLKNVQslrkegdfkdvAQTVpenpvderplppAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKtmrntkfvll
Low Complexity Region (SEG)
MGNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRllaeiigkeeeilggFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPvgivglhgmggvgKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
Disordered region (IsUnstruct)
****CSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVES********************************AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKT*********
Disordered Region (DISOPRED)
*GNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKE****************************STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF*S*******IFKTMRNTKFVLL
Disordered Region (DISEMBL)
*********SCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
Disordered Region (DISPRO)
*GNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRxxxxxxxxxxxxxxxxxxxxxILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVLL
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	243	2.2.26 [Sep-21-2011]
Q9LMP6	851	Probable disease resistan	yes	no	0.995	0.284	0.402	5e-42
Q8L3R3	885	Disease resistance protei	no	no	1.0	0.274	0.403	6e-41
P60838	894	Probable disease resistan	no	no	1.0	0.271	0.380	3e-40
Q8RXS5	888	Probable disease resistan	no	no	0.975	0.266	0.370	6e-40
O22727	967	Probable disease resistan	no	no	0.995	0.250	0.367	4e-38
O82484	892	Putative disease resistan	no	no	0.991	0.270	0.366	2e-37
Q940K0	889	Probable disease resistan	no	no	0.991	0.271	0.367	2e-37
O64789	925	Probable disease resistan	no	no	0.995	0.261	0.358	1e-36
O64973	889	Disease resistance protei	no	no	0.983	0.268	0.374	3e-36
P60839	884	Probable disease resistan	no	no	1.0	0.274	0.358	2e-35

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  171 bits (432), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 105/261 (40%), Positives = 146/261 (55%), Gaps = 19/261 (7%)

Query: 1   MGNACSVSFSCDDTISHCLDCI-----------TILLPLRTEFQKLIEARNDVQIRVLVA 49
           MGN  ++  SCD T++H   C+             L  L+   Q+L E R+D+  RV++ 
Sbjct: 1   MGNCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIE 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL-AEIIGKEEEILGGFCSGNSIERHKYGKRVV 108
           E +  +RL QVQGWLSRV+DV  +V  LL A+ I  E   L G+CS N I    YG  V+
Sbjct: 61  EDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVL 120

Query: 109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGL 168
           + LK+V+ L  +G F+ VA+ +P   V+++ +    VG  + + R W  L ++    +GL
Sbjct: 121 KKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGL 179

Query: 169 HGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFS------ 222
           +GMGGVGKTTLL  INN FL   N FD VIW VVS+DLQ E +QE I  ++         
Sbjct: 180 YGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLHRGWKQV 239

Query: 223 SFHEKAQEIFKTMRNTKFVLL 243
           +  EKA  I   +   KFVLL
Sbjct: 240 TEKEKASYICNILNVKKFVLL 260

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

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  167 bits (423), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 106/263 (40%), Positives = 145/263 (55%), Gaps = 20/263 (7%)

Query: 1   MGNACSVSFSCDDTISH-----CLDCITI------LLPLRTEFQKLIEARNDVQIRVLVA 49
           MG   SVS SCD  ++      C+    I      L  L+     L   R+DVQ R+   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query: 50  E-QRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI-LGGFCSGNSIERHKYGKRV 107
           E     RRL QVQ WL+R+Q +E +   LL+    + + + L GFCS N    + YGKRV
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVG 167
           +  L+ V+ L  +G F  V +  P   V+E P+   +VG  S LD+VW CL E+ V IVG
Sbjct: 121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query: 168 LHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------ 221
           L+GMGGVGKTTLLTQINN F      FD VIW VVS++  + K+Q+SI +K+        
Sbjct: 181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query: 222 -SSFHEKAQEIFKTMRNTKFVLL 243
             + +++A +I   +R  KFVLL
Sbjct: 241 EKNKNQRALDIHNVLRRKKFVLL 263

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  165 bits (417), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 100/263 (38%), Positives = 150/263 (57%), Gaps = 20/263 (7%)

Query: 1   MGNACSVSFSCDDTISHCLD--CITI---------LLPLRTEFQKLIEARNDVQIRVLVA 49
           MG   ++SFSCD+ ++      CI +         ++ ++ + + L + R+DV+ RV + 
Sbjct: 1   MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query: 50  E-QRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI-LGGFCSGNSIERHKYGKRV 107
           E  R+  RL QVQGWL+ V  VE +   LL     + + + L GFCS N    + YGKRV
Sbjct: 61  EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query: 108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVG 167
           V  LK ++SL  +GDF  V    P   ++E P+ P +VG ++ L+RVW  LTE+   IVG
Sbjct: 121 VLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVG 180

Query: 168 LHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFS----- 222
           L+GMGGVGKTTLLT+INN F    + F  VIW VVS+   + ++Q  I K++        
Sbjct: 181 LYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWD 240

Query: 223 --SFHEKAQEIFKTMRNTKFVLL 243
             + +++A +I+  +   KFVLL
Sbjct: 241 NVNENQRALDIYNVLGKQKFVLL 263

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  164 bits (414), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 99/267 (37%), Positives = 152/267 (56%), Gaps = 30/267 (11%)

Query: 1   MGNACSVSFSCDDTISHCLDCITI-----------LLPLRTEFQKLIEARNDVQIRVLVA 49
           MG   SVS SCD    +   C+             L  L+   +++ + R D+  ++L  
Sbjct: 1   MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI----LGGFCSGNSIERHKYGK 105
           E+R  +RL  VQGW+S+V+ +   VPR+   +  +  ++    L GFCS N +  ++YGK
Sbjct: 61  ERRGLQRLSVVQGWVSKVEAI---VPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGK 117

Query: 106 RVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGI 165
           RV++ ++ V+ LR +GDF  VA+ V    V+ERP  P +V     L+  W  L E+ +GI
Sbjct: 118 RVMKMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGI 176

Query: 166 VGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFH 225
           +GLHGMGGVGKTTLL+ INN F      FD VIW VVS++LQ++++Q+ I +K+   S +
Sbjct: 177 LGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKL--RSDN 234

Query: 226 E---------KAQEIFKTMRNTKFVLL 243
           E         KA  I+  +++ +FVLL
Sbjct: 235 EKWKQKTEDIKASNIYNVLKHKRFVLL 261

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  157 bits (398), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 96/261 (36%), Positives = 142/261 (54%), Gaps = 19/261 (7%)

Query: 1   MGNACSVSFSCDDTISHCLDCIT----------ILLPLRTEFQKLIEARNDVQIRVLVAE 50
           MGN   +  S D  +   + C+            L  L+ E + L   +++VQ +V   E
Sbjct: 1   MGNFVCIEISGDQMLDRIIRCLCGKGYIRNLEKNLRALQREMEDLRATQHEVQNKVAREE 60

Query: 51  QRQWRRLQQVQGWLSRVQDVEKEVPRLLA-EIIGKEEEILGGFCSGNSIERHKYGKRVVE 109
            R  +RL+ VQ WL RV  ++ E   LL+   +  ++  L G CS      +KYGKRV  
Sbjct: 61  SRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFL 120

Query: 110 SLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLH 169
            L+ V  L+ EG+F +V+Q  P + V+ERP  P + G +  L + W  L E+ VGI+GLH
Sbjct: 121 LLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGLH 179

Query: 170 GMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-------S 222
           GMGGVGKTTL  +I+N F  T   FD VIW VVS+  +L K+QE IA+K+          
Sbjct: 180 GMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNK 239

Query: 223 SFHEKAQEIFKTMRNTKFVLL 243
           +  +KA +I + ++  +FVL+
Sbjct: 240 NESDKATDIHRVLKGKRFVLM 260

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  155 bits (393), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 96/262 (36%), Positives = 137/262 (52%), Gaps = 21/262 (8%)

Query: 1   MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
           MG+  S+  SCD  ++    C   L           + L    + L   R+DV  RV + 
Sbjct: 1   MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL-AEIIGKEEEILGGFCSGNSIERHKYGKRVV 108
           E +   RLQQVQ WL RV+ +  +   LL A  I  +       CS N    + YG+RV 
Sbjct: 61  EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query: 109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGL 168
             +K V++L   G F+ VA   P+  ++ RP+ P ++G ++   R W  L ++ VG +GL
Sbjct: 121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query: 169 HGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------- 221
           +GMGGVGKTTLLTQI+N+   T N  D VIW VVS DLQ+ K+QE I +K+ F       
Sbjct: 179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query: 222 SSFHEKAQEIFKTMRNTKFVLL 243
               +KA +I   +   +FVLL
Sbjct: 239 KQESQKAVDILNCLSKKRFVLL 260

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  155 bits (393), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 96/261 (36%), Positives = 145/261 (55%), Gaps = 20/261 (7%)

Query: 1   MGNACSVSFSCDDTISHCLDCIT----------ILLPLRTEFQKLIEARNDVQIRVLVAE 50
           MG+  S+  S D T++   +C+            L  L+ E + L   +++VQ +V   E
Sbjct: 1   MGSCFSLQVS-DQTLNRIFNCLIGKSYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDE 59

Query: 51  QRQWRRLQQVQGWLSRVQDVEKEVPRLLAEI-IGKEEEILGGFCSGNSIERHKYGKRVVE 109
            R  RRL+ VQ WL RV  V+ E   LL+   +  ++  L G CS      +KYGK+V  
Sbjct: 60  ARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFL 119

Query: 110 SLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLH 169
            L+ V+ L  EG+F +V+Q  P + V+ERP  P + G +  L++ W  L E+ VGI+GLH
Sbjct: 120 LLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGLH 178

Query: 170 GMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-------S 222
           GMGGVGKTTL  +I+N F      FD VIW VVS+ + + K+QE IA+K+          
Sbjct: 179 GMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNK 238

Query: 223 SFHEKAQEIFKTMRNTKFVLL 243
           +  +KA +I + ++  +FVL+
Sbjct: 239 NESDKATDIHRVLKGKRFVLM 259

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  153 bits (387), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 94/262 (35%), Positives = 145/262 (55%), Gaps = 20/262 (7%)

Query: 1   MGNACSVSFSC-DDTISHCLDCIT----------ILLPLRTEFQKLIEARNDVQIRVLVA 49
           MG+  S   +  D T++   DC+            L  L+ E + L   +++VQ +V   
Sbjct: 1   MGSCFSFQIAVGDQTMNRIFDCLIGKSYIRTLEKNLRALQREMEDLRATQHEVQNKVARE 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLLA-EIIGKEEEILGGFCSGNSIERHKYGKRVV 108
           E R  +RL+ VQ WL RV  ++ E   LL+   +  ++  L G C+      +KYGK+V 
Sbjct: 61  ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVF 120

Query: 109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGL 168
             L+ V+ L+ EG+F +V+Q  P + V+ERP  P + G +  L++ W  L E+ VGI+GL
Sbjct: 121 LLLEEVKILKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLEKAWNRLMEDGVGIMGL 179

Query: 169 HGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------- 221
           HGMGGVGKTTL  +I+N F      FD VIW VVS+  +L K+QE IA+K+         
Sbjct: 180 HGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKN 239

Query: 222 SSFHEKAQEIFKTMRNTKFVLL 243
            +  +KA +I + ++  +FVL+
Sbjct: 240 KNESDKATDIHRVLKGKRFVLM 261

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  152 bits (383), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 100/267 (37%), Positives = 141/267 (52%), Gaps = 28/267 (10%)

Query: 1   MGNACSVSFSCDDTISHCLDCITILLPLRTEF--------------QKLIEARNDVQIRV 46
           MG   SVS  CD  +S      + LL +R  +               ++++AR    IR 
Sbjct: 1   MGGCFSVSLPCDQVVSQ----FSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDVIRR 56

Query: 47  LVAEQRQWR--RLQQVQGWLSRVQDVEKEVPRLL-AEIIGKEEEILGGFCSGNSIERHKY 103
           L  E+   R  RL QVQ WL+ V  ++ +   LL +  +  +   L GFCS +    ++Y
Sbjct: 57  LETEEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRY 116

Query: 104 GKRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPV 163
           GKRV+  LK V+SL  +G F  V++  P   VDE P  P +VG +  L++ W  L E+  
Sbjct: 117 GKRVIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGS 176

Query: 164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSS 223
           GI+GL+GMGGVGKTTLLT+INN F    + FD VIW VVSR   + K+Q  IA+K+    
Sbjct: 177 GILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGG 236

Query: 224 F-------HEKAQEIFKTMRNTKFVLL 243
                   ++ A +I   +R  KFVLL
Sbjct: 237 MEWSEKNDNQIAVDIHNVLRRRKFVLL 263

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  149 bits (375), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 94/262 (35%), Positives = 138/262 (52%), Gaps = 19/262 (7%)

Query: 1   MGNACSVSFSCDDTISHCLDCIT-----------ILLPLRTEFQKLIEARNDVQIRVLVA 49
           MG   SV  SCD  ++H   C              L  L    + L   R+D+  +V  A
Sbjct: 1   MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRL-LAEIIGKEEEILGGFCSGNSIERHKYGKRVV 108
           E+   +RL Q++ WL RV+ +E +   L  +  +  +     G  S N    + YG+RV 
Sbjct: 61  EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query: 109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGL 168
             L  V+ L+ +G F++VA        +ERPL P +VG ++ L++ W  L ++   I+GL
Sbjct: 121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query: 169 HGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------- 221
           +GMGGVGKTTLLTQINN F  T +  + VIW VVS DLQ+ K+Q+ I +KI F       
Sbjct: 181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query: 222 SSFHEKAQEIFKTMRNTKFVLL 243
            S ++KA +I   +   +FVLL
Sbjct: 241 KSENQKAVDILNFLSKKRFVLL 262

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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	243
24461861	890	NBS-LRR type disease resistance protein	1.0	0.273	0.490	1e-59
24461866	890	NBS-LRR type disease resistance protein	0.991	0.270	0.458	1e-54
359482676	896	PREDICTED: probable disease resistance p	0.991	0.268	0.477	3e-54
24461864	899	NBS-LRR type disease resistance protein	0.987	0.266	0.471	5e-52
359483035	897	PREDICTED: probable disease resistance p	0.983	0.266	0.469	5e-50
225462595	897	PREDICTED: probable disease resistance p	0.983	0.266	0.469	7e-50
225470150	897	PREDICTED: probable disease resistance p	0.983	0.266	0.466	3e-49
147779772	910	hypothetical protein VITISV_011527 [Viti	0.958	0.256	0.469	2e-48
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.995	0.275	0.448	3e-47
24461863	889	NBS-LRR type disease resistance protein	0.958	0.262	0.439	7e-47

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 129/263 (49%), Positives = 167/263 (63%), Gaps = 20/263 (7%)

Query: 1   MGNACSVSFSCDDTI-SHCLDCI-----------TILLPLRTEFQKLIEARNDVQIRVLV 48
           MGN C +S SCD    + CLDC              L+ L TE +KLI A+ND+  RV  
Sbjct: 1   MGNICQISISCDGAFFNRCLDCFLGKAAYISNLQDNLVALDTELRKLIAAKNDLMRRVND 60

Query: 49  AEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI-LGGFCSGNSIERHKYGKRV 107
           AE++Q RRL QVQ W+SRV+ VE E    + +   + E++ LGG+CS N    +K+GK+V
Sbjct: 61  AERQQMRRLDQVQVWVSRVETVETEADAFIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQV 120

Query: 108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVG 167
              L+++++L  EG F+ VA  VPE  VDERP  P VVG QS L+ VWRCL EEPVGIVG
Sbjct: 121 ARKLRDIKTLMGEGVFEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGIVG 180

Query: 168 LHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSS---- 223
           L+GMGGVGKTTLLT INN FL +  NFD VI  VVS+DL+LE +QE I +KI   +    
Sbjct: 181 LYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDAWK 240

Query: 224 ---FHEKAQEIFKTMRNTKFVLL 243
                +KA +IF+ +R   FV+L
Sbjct: 241 SRRIEQKALDIFRILRGKNFVVL 263

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  218 bits (556), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 121/264 (45%), Positives = 166/264 (62%), Gaps = 23/264 (8%)

Query: 1   MGNACSVSFSCDDTISHCLDCITI-----------LLPLRTEFQKLIEARNDVQIRVLVA 49
           MGN   V     +    CLD I             L  L+T+ ++LIEA++DV  RV +A
Sbjct: 1   MGNVFGVQIPWSNIFPRCLDWILNEAKYISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIA 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEE---EILGGFCSGNSIERHKYGKR 106
           E++Q  RL QVQGW+SRV+ V+ E  +L+   +G +E     L G+CS N    + +GK+
Sbjct: 61  ERQQMSRLNQVQGWVSRVEAVKAEADQLIR--VGSQEIERLCLWGYCSKNCKSSYDFGKK 118

Query: 107 VVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIV 166
           V + L+ V++L  EG F+ VA+ VP     ERP  P V+G QS L++VWRCL EEP GIV
Sbjct: 119 VTKKLQLVETLMGEGIFEVVAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPAGIV 178

Query: 167 GLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSS--- 223
           GL+GMGGVGKTTLLT INN FL ++ NF++VIW VVS+DL+LE +QE+I +KI   +   
Sbjct: 179 GLYGMGGVGKTTLLTHINNKFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLNDTW 238

Query: 224 ----FHEKAQEIFKTMRNTKFVLL 243
                 +KA +IFK ++  KFVLL
Sbjct: 239 KNRRIEQKALDIFKILKEKKFVLL 262

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482676|ref|XP_002281742.2| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  217 bits (553), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 126/264 (47%), Positives = 165/264 (62%), Gaps = 23/264 (8%)

Query: 1   MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
           MGN CSVS S +D    C DC               + LRTE QKL E RNDV+ +V VA
Sbjct: 1   MGNVCSVSISTEDIAGRCCDCTAARANYICKLQENRVTLRTELQKLRELRNDVKRKVDVA 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL---AEIIGKEEEILGGFCSGNSIERHKYGKR 106
           E++Q +RL QVQGWLSRV+D+E EV +L+   AE I +E+   G     + I  +  GK+
Sbjct: 61  ERQQMKRLDQVQGWLSRVEDMETEVTQLIGDGAENI-EEKRFCGSCYPKHCISSYTLGKK 119

Query: 107 VVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIV 166
           VV  L+ V +L  +G F+ VA  VP   V+E P     VG +ST DRVWRCL EE VG++
Sbjct: 120 VVRKLQQVAALMSDGRFEVVADIVPPAAVEEIP-SGTTVGLESTFDRVWRCLGEEHVGMI 178

Query: 167 GLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----- 221
           GL+G+GGVGKTTLLTQINN FL TS+NFD VIW VVS+   L+++Q  I +K+ F     
Sbjct: 179 GLYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSKTPNLDEVQNEIWEKVGFCDDKW 238

Query: 222 --SSFHEKAQEIFKTMRNTKFVLL 243
              S H KA++I+K +   +FV+L
Sbjct: 239 KSKSRHLKAKDIWKALNEKRFVML 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  210 bits (534), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 126/267 (47%), Positives = 163/267 (61%), Gaps = 27/267 (10%)

Query: 1   MGNACSVSFSCDDT-ISHCLDCI-----------TILLPLRTEFQKLIEARNDVQIRVLV 48
           MGN   +S SCD T  + CLDC              +  L+ E  KLI  ++DV  RV+ 
Sbjct: 1   MGNILQISISCDGTCFNRCLDCFLGKAAYVRNLQKNVEALKNELPKLIAKKDDVMARVVN 60

Query: 49  AEQRQW-RRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEE---EILGGFCSGNSIERHKYG 104
           AE++Q   RL +VQ WLSRV  V      L+   IG +E     LGG+CS N     K+G
Sbjct: 61  AERQQMMTRLNEVQLWLSRVDAVTAGADELIR--IGSQEIEKLCLGGYCSKNCKSSKKFG 118

Query: 105 KRVVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVG 164
           K+V + L +V+ L  EG F  VAQ  PE+  DERP+ PAV G QS L++VWRCL EEPVG
Sbjct: 119 KQVDKKLSDVKILLAEGSFAVVAQRAPESVADERPIEPAV-GIQSQLEQVWRCLVEEPVG 177

Query: 165 IVGLHGMGGVGKTTLLTQINNSFLHTSN-NFDFVIWEVVSRDLQLEKMQESIAKKIAF-- 221
           IVGL+GMGGVGKTTLLT +NN FL   + +FDF+IW VVS+DLQ+EK+QE I KK+    
Sbjct: 178 IVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLFN 237

Query: 222 -----SSFHEKAQEIFKTMRNTKFVLL 243
                 +  E+A +I+  ++  KFVLL
Sbjct: 238 DSWMKKNLAERAVDIYNVLKEKKFVLL 264

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483035|ref|XP_003632886.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  203 bits (517), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 125/266 (46%), Positives = 166/266 (62%), Gaps = 27/266 (10%)

Query: 1   MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
           MGN  SVS S +D I+ C DC               + LRTE QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTND-IAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL---AEIIGKEEEILGGFC-SGNSIERHKYGK 105
           E++Q +RL QVQGWLS+V+ +E EV +L+   AE I  EE+ L G C   + I  +  GK
Sbjct: 60  ERQQMKRLDQVQGWLSKVEAMETEVGQLIGDGAETI--EEKRLRGCCHPKHCISSYTLGK 117

Query: 106 RVVESLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVG 164
           +V   L++  +L  EG +F+ VA  VP  PV+E P  P V G +ST D+VWR L EE VG
Sbjct: 118 KVARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVG 176

Query: 165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF--- 221
           ++GL+G+GGVGKTTLL QINN FL TS+NFD VIW VVS+   LE++Q  I +K+ F   
Sbjct: 177 MIGLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDD 236

Query: 222 ----SSFHEKAQEIFKTMRNTKFVLL 243
                S HEKA +I++ +   +FV+L
Sbjct: 237 KWKSKSRHEKANDIWRALSKKRFVML 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462595|ref|XP_002270572.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 125/266 (46%), Positives = 164/266 (61%), Gaps = 27/266 (10%)

Query: 1   MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
           MGN  SVS S +D I+ C DC               + LRTE QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTND-IAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL---AEIIGKEEEILGGFC-SGNSIERHKYGK 105
           E++Q +RL QVQGWLSRV+ +E EV +L+   AE I  EE+ L G C   + I  +  GK
Sbjct: 60  ERQQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETI--EEKRLRGCCHPKHCISSYTLGK 117

Query: 106 RVVESLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVG 164
           +V   L++  +L  EG +F+ VA  VP  PV+E P  P V G +ST D+VWR L EE VG
Sbjct: 118 KVARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVG 176

Query: 165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF--- 221
           ++GL+G+GGVGKTTLL QINN FL TS+NFD VIW VVS+   LE++Q  I +K+ F   
Sbjct: 177 MIGLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDD 236

Query: 222 ----SSFHEKAQEIFKTMRNTKFVLL 243
                S HEKA  I++ +   +F +L
Sbjct: 237 KWKSKSRHEKANNIWRALSKKRFAML 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470150|ref|XP_002267120.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  201 bits (510), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 124/266 (46%), Positives = 166/266 (62%), Gaps = 27/266 (10%)

Query: 1   MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
           MGN  SVS S +D I+ C DC               + LRTE QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTND-IAGCCDCTAARANYICKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLL---AEIIGKEEEILGGFC-SGNSIERHKYGK 105
           E++Q +RL QVQGWLSRV+ +E EV +L+   AE +  EE+ L G C   + I  +  GK
Sbjct: 60  ERQQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETV--EEKRLRGCCHPKHCISSYTLGK 117

Query: 106 RVVESLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVG 164
           +V   L+++ +L  EG +F+ VA  VP  PV+E P   + VG +ST D+VWR L EE VG
Sbjct: 118 KVARKLQDMATLMSEGRNFEVVADIVPPAPVEEIP-GRSTVGLESTFDKVWRSLEEEHVG 176

Query: 165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF--- 221
           ++G +G+GGVGKTTLLTQINN FL TS+NFD VIW VVSR   L ++Q  I +K+ F   
Sbjct: 177 MIGFYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSRTPNLGRVQNEIWEKVGFCDD 236

Query: 222 ----SSFHEKAQEIFKTMRNTKFVLL 243
                S HEKA+ I++ +   +FV+L
Sbjct: 237 KWKSKSRHEKAKVIWRALSKKRFVML 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147779772|emb|CAN65731.1| hypothetical protein VITISV_011527 [Vitis vinifera]

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 122/260 (46%), Positives = 162/260 (62%), Gaps = 27/260 (10%)

Query: 7   VSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVAEQRQWR 55
           VS S +D I+ C DC               + LRTE QKL E +NDV  +V VAE++Q +
Sbjct: 49  VSISTND-IAGCCDCTAARANYICKLAENRVTLRTELQKLRELKNDVNRKVDVAERQQMK 107

Query: 56  RLQQVQGWLSRVQDVEKEVPRLL---AEIIGKEEEILGGFC-SGNSIERHKYGKRVVESL 111
           RL QVQGWLSRV+ +E EV +L+   AE I  EE+ L G C   + I  +  GK+V   L
Sbjct: 108 RLDQVQGWLSRVEAMETEVGQLIGDGAETI--EEKRLRGCCHPKHCISXYTLGKKVARKL 165

Query: 112 KNVQSLRKEG-DFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVGLHG 170
           ++  +L  EG +F+ VA  VP  PV+E P  P V G +ST D+VWR L EE VG++GL+G
Sbjct: 166 QDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVGMIGLYG 224

Query: 171 MGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-------SS 223
           +GGVGKTTLL QINN FL TS+NFD VIW VVS+   LE++Q  I +K+ F        S
Sbjct: 225 LGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKWKSKS 284

Query: 224 FHEKAQEIFKTMRNTKFVLL 243
            HEKA +I++ +   +FV+L
Sbjct: 285 RHEKANDIWRALSKKRFVML 304

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  194 bits (493), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 118/263 (44%), Positives = 158/263 (60%), Gaps = 21/263 (7%)

Query: 1   MGNACSVSFSCDDTISHCLD-------CITILLP----LRTEFQKLIEARNDVQIRVLVA 49
           MGN CS+S SCD  +S CLD        I+ L      L+   ++L +  NDV  RV V 
Sbjct: 1   MGNFCSISISCDKLLSGCLDFTFRKAVYISKLKENVDGLKIAVEELTDLHNDVTRRVKVD 60

Query: 50  EQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI-LGGFCSGNSIERHKYGKRVV 108
           E++Q ++L QVQ W+SR +    +   LL E   + E + L G+CS N    +++ K V 
Sbjct: 61  EEQQLKQLDQVQRWISRAKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEVD 120

Query: 109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEP-VGIVG 167
           + L++V  L+  GDFK VA+ VP      RP  P V G +ST ++VW CL EE  VGIVG
Sbjct: 121 KRLRDVADLKANGDFKVVAEKVPAASGVPRPSEPTV-GLESTFNQVWTCLREEKQVGIVG 179

Query: 168 LHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFS----- 222
           L+GMGGVGKTTLLTQINN  L T ++FD VIW VVS+DL+L  +QESI + I  S     
Sbjct: 180 LYGMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDDLWK 239

Query: 223 --SFHEKAQEIFKTMRNTKFVLL 243
             S  EKA +IF  +R+ +FV+L
Sbjct: 240 NKSLDEKAVDIFNALRHKRFVML 262

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  193 bits (490), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 116/264 (43%), Positives = 157/264 (59%), Gaps = 31/264 (11%)

Query: 1   MGNACSVSFSCDDTISHCLDCIT-----------ILLPLRTEFQKLIEARNDVQIRVLVA 49
           MGN   ++       + C+DC              ++ L TE  KLIEA+NDV  RV+  
Sbjct: 1   MGNILQIAID-GAVFNRCMDCFLGKAAYIRNLQENVVALETELGKLIEAKNDVMARVVNT 59

Query: 50  E-QRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEI-LGGFCSGNSIERHKYGKRV 107
           E Q    RL +VQGWLS V  V+ E   L+     + E++ LGG+CS N    +K+GK+V
Sbjct: 60  ERQPMMTRLNKVQGWLSGVDAVKAEADELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQV 119

Query: 108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIVG 167
            + L++  +L  EG F+ VA+  PE+         A VG QS L+ VWRCL EEPVGIVG
Sbjct: 120 AKKLRDAGTLMAEGVFEVVAERAPES---------AAVGMQSRLEPVWRCLVEEPVGIVG 170

Query: 168 LHGMGGVGKTTLLTQINNSFLHTSN-NFDFVIWEVVSRDLQLEKMQESIAKKIAF----- 221
           L+GMGGVGKTTLLT +NN FL   + +FDF+IW VVS+DLQ+EK+QE I KK+ F     
Sbjct: 171 LYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGFFNDSW 230

Query: 222 --SSFHEKAQEIFKTMRNTKFVLL 243
              +  E+A +I+  ++  KFVLL
Sbjct: 231 MKKNLAERAVDIYNVLKEKKFVLL 254

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	243
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.995	0.284	0.344	4.9e-30
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	1.0	0.271	0.326	1.5e-29
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	1.0	0.274	0.353	3.6e-28
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.995	0.272	0.309	9.6e-28
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.991	0.270	0.312	5.1e-26
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	1.0	0.274	0.309	2.2e-25
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.995	0.272	0.344	4.6e-25
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.991	0.268	0.310	4.7e-25
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.995	0.250	0.310	5.4e-25
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.967	0.272	0.311	6.1e-23

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 342 (125.4 bits), Expect = 4.9e-30, P = 4.9e-30
 Identities = 90/261 (34%), Positives = 129/261 (49%)

Query:     1 MGNACSVSFSCDDTISHCLDCI----TILLP-------LRTEFQKLIEARNDVQIRVLVA 49
             MGN  ++  SCD T++H   C+      +L        L+   Q+L E R+D+  RV++ 
Sbjct:     1 MGNCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIE 60

Query:    50 EQRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKRVV 108
             E +  +RL QVQGWLSRV+DV  +V                  +CS N I    YG  V+
Sbjct:    61 EDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVL 120

Query:   109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXX 168
             + LK+V+ L  +G F+ VA+ +P   V+++ +    VG  + + R W  L ++       
Sbjct:   121 KKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGL 179

Query:   169 XXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFS------ 222
                    KTTLL  INN FL   N FD VIW VVS+DLQ E +QE I  ++         
Sbjct:   180 YGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLHRGWKQV 239

Query:   223 SFHEKAQEIFKTMRNTKFVLL 243
             +  EKA  I   +   KFVLL
Sbjct:   240 TEKEKASYICNILNVKKFVLL 260

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.5e-29, P = 1.5e-29
 Identities = 86/263 (32%), Positives = 132/263 (50%)

Query:     1 MGNACSVSFSCDDTISHCLD--CITI---------LLPLRTEFQKLIEARNDVQIRVLVA 49
             MG   ++SFSCD+ ++      CI +         ++ ++ + + L + R+DV+ RV + 
Sbjct:     1 MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query:    50 E-QRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXX-XXXFCSGNSIERHKYGKRV 107
             E  R+  RL QVQGWL+ V  VE +                   FCS N    + YGKRV
Sbjct:    61 EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query:   108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXX 167
             V  LK ++SL  +GDF  V    P   ++E P+ P +VG ++ L+RVW  LTE+      
Sbjct:   121 VLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVG 180

Query:   168 XXXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFS----- 222
                     KTTLLT+INN F    + F  VIW VVS+   + ++Q  I K++        
Sbjct:   181 LYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWD 240

Query:   223 --SFHEKAQEIFKTMRNTKFVLL 243
               + +++A +I+  +   KFVLL
Sbjct:   241 NVNENQRALDIYNVLGKQKFVLL 263

GO:0006952 "defense response" evidence=IGI;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 3.6e-28, P = 3.6e-28
 Identities = 93/263 (35%), Positives = 125/263 (47%)

Query:     1 MGNACSVSFSCDDTISH-----CLDCITI------LLPLRTEFQKLIEARNDVQIRVLVA 49
             MG   SVS SCD  ++      C+    I      L  L+     L   R+DVQ R+   
Sbjct:     1 MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query:    50 E-QRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKRV 107
             E     RRL QVQ WL+R+Q +E +                   FCS N    + YGKRV
Sbjct:    61 EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query:   108 VESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXX 167
             +  L+ V+ L  +G F  V +  P   V+E P+   +VG  S LD+VW CL E+      
Sbjct:   121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query:   168 XXXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF--SSFH 225
                     KTTLLTQINN F      FD VIW VVS++  + K+Q+SI +K+     ++ 
Sbjct:   181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query:   226 EK-----AQEIFKTMRNTKFVLL 243
             EK     A +I   +R  KFVLL
Sbjct:   241 EKNKNQRALDIHNVLRRKKFVLL 263

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 321 (118.1 bits), Expect = 9.6e-28, P = 9.6e-28
 Identities = 81/262 (30%), Positives = 131/262 (50%)

Query:     1 MGNACSVSFSCDDTISHCLDCITI-----------LLPLRTEFQKLIEARNDVQIRVLVA 49
             MG   SVS SCD    +   C+             L  L+   +++ + R D+  ++L  
Sbjct:     1 MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query:    50 EQRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKRVV 108
             E+R  +RL  VQGW+S+V+ +   V                  FCS N +  ++YGKRV+
Sbjct:    61 ERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVM 120

Query:   109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXX 168
             + ++ V+ LR +GDF  VA+ V    V+ERP  P +V     L+  W  L E+       
Sbjct:   121 KMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGILGL 179

Query:   169 XXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSS--FHE 226
                    KTTLL+ INN F      FD VIW VVS++LQ++++Q+ I +K+   +  + +
Sbjct:   180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query:   227 KAQEI-----FKTMRNTKFVLL 243
             K ++I     +  +++ +FVLL
Sbjct:   240 KTEDIKASNIYNVLKHKRFVLL 261

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 5.1e-26, P = 5.1e-26
 Identities = 82/262 (31%), Positives = 120/262 (45%)

Query:     1 MGNACSVSFSCDDTISHCLDCITIL-----------LPLRTEFQKLIEARNDVQIRVLVA 49
             MG+  S+  SCD  ++    C   L           + L    + L   R+DV  RV + 
Sbjct:     1 MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query:    50 EQRQWRRLQQVQGWLSRVQDVEKEV-PRXXXXXXXXXXXXXXXFCSGNSIERHKYGKRVV 108
             E +   RLQQVQ WL RV+ +  +                    CS N    + YG+RV 
Sbjct:    61 EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query:   109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXX 168
               +K V++L   G F+ VA   P+  ++ RP+ P ++G ++   R W  L ++       
Sbjct:   121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query:   169 XXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------- 221
                    KTTLLTQI+N+   T N  D VIW VVS DLQ+ K+QE I +K+ F       
Sbjct:   179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query:   222 SSFHEKAQEIFKTMRNTKFVLL 243
                 +KA +I   +   +FVLL
Sbjct:   239 KQESQKAVDILNCLSKKRFVLL 260

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 299 (110.3 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 81/262 (30%), Positives = 125/262 (47%)

Query:     1 MGNACSVSFSCDDTISHCLDC----ITILLPLRTEFQKLIEA-------RNDVQIRVLVA 49
             MG   SV  SCD  ++H   C    +  +  ++     L EA       R+D+  +V  A
Sbjct:     1 MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query:    50 EQRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXXXFCSGNSIE-RHKYGKRVV 108
             E+   +RL Q++ WL RV+ +E +                       ++   + YG+RV 
Sbjct:    61 EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query:   109 ESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXX 168
               L  V+ L+ +G F++VA        +ERPL P +VG ++ L++ W  L ++       
Sbjct:   121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query:   169 XXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF------- 221
                    KTTLLTQINN F  T +  + VIW VVS DLQ+ K+Q+ I +KI F       
Sbjct:   181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query:   222 SSFHEKAQEIFKTMRNTKFVLL 243
              S ++KA +I   +   +FVLL
Sbjct:   241 KSENQKAVDILNFLSKKRFVLL 262

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 91/264 (34%), Positives = 125/264 (47%)

Query:     1 MGNACSVSFSCDDTISHC--LDCI--TILLPLR---TEFQK---LIEARNDVQIRVLVAE 50
             MG   SVS  CD  +S    L C+  + +  L       QK   +++AR    IR L  E
Sbjct:     1 MGGCFSVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDVIRRLETE 60

Query:    51 Q---RQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKR 106
             +   RQ +RL QVQ WL+ V  ++ +                   FCS +    ++YGKR
Sbjct:    61 EFTGRQ-QRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKR 119

Query:   107 VVESLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXX 166
             V+  LK V+SL  +G F  V++  P   VDE P  P +VG +  L++ W  L E+     
Sbjct:   120 VIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGIL 179

Query:   167 XXXXXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFH- 225
                      KTTLLT+INN F    + FD VIW VVSR   + K+Q  IA+K+       
Sbjct:   180 GLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEW 239

Query:   226 -EK-----AQEIFKTMRNTKFVLL 243
              EK     A +I   +R  KFVLL
Sbjct:   240 SEKNDNQIAVDIHNVLRRRKFVLL 263

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 4.7e-25, P = 4.7e-25
 Identities = 81/261 (31%), Positives = 126/261 (48%)

Query:     1 MGNACSVSFSCDDTISHCLDCI-------TI---LLPLRTEFQKLIEARNDVQIRVLVAE 50
             MG+  S+  S D T++   +C+       T+   L  L+ E + L   +++VQ +V   E
Sbjct:     1 MGSCFSLQVS-DQTLNRIFNCLIGKSYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDE 59

Query:    51 QRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKRVVE 109
              R  RRL+ VQ WL RV  V+ E                    CS      +KYGK+V  
Sbjct:    60 ARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFL 119

Query:   110 SLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXXX 169
              L+ V+ L  EG+F +V+Q  P + V+ERP  P + G +  L++ W  L E+        
Sbjct:   120 LLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGLH 178

Query:   170 XXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-------S 222
                   KTTL  +I+N F      FD VIW VVS+ + + K+QE IA+K+          
Sbjct:   179 GMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNK 238

Query:   223 SFHEKAQEIFKTMRNTKFVLL 243
             +  +KA +I + ++  +FVL+
Sbjct:   239 NESDKATDIHRVLKGKRFVLM 259

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 5.4e-25, P = 5.4e-25
 Identities = 81/261 (31%), Positives = 122/261 (46%)

Query:     1 MGNACSVSFSCDDTISHCLDCIT----I------LLPLRTEFQKLIEARNDVQIRVLVAE 50
             MGN   +  S D  +   + C+     I      L  L+ E + L   +++VQ +V   E
Sbjct:     1 MGNFVCIEISGDQMLDRIIRCLCGKGYIRNLEKNLRALQREMEDLRATQHEVQNKVAREE 60

Query:    51 QRQWRRLQQVQGWLSRVQDVEKEVPRXXXXXXXXXXXXXX-XFCSGNSIERHKYGKRVVE 109
              R  +RL+ VQ WL RV  ++ E                    CS      +KYGKRV  
Sbjct:    61 SRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFL 120

Query:   110 SLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXXX 169
              L+ V  L+ EG+F +V+Q  P + V+ERP  P + G +  L + W  L E+        
Sbjct:   121 LLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGLH 179

Query:   170 XXXXXXKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-------S 222
                   KTTL  +I+N F  T   FD VIW VVS+  +L K+QE IA+K+          
Sbjct:   180 GMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNK 239

Query:   223 SFHEKAQEIFKTMRNTKFVLL 243
             +  +KA +I + ++  +FVL+
Sbjct:   240 NESDKATDIHRVLKGKRFVLM 260

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 276 (102.2 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 77/247 (31%), Positives = 113/247 (45%)

Query:     4 ACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGW 63
             AC   F  D    H ++  + L  L+   ++L   R+D+  RV + E +  +RL QV GW
Sbjct:    16 ACGC-FLSDRNYIHMME--SNLDALQKTMEELKNGRDDLLGRVSIEEDKGLQRLAQVNGW 72

Query:    64 LSRVQDVEKEVPRXXXXXXXXXXXX-XXXFCSGNSIERHKYGKRVVESLKNVQSLRKEGD 122
             LSRVQ VE E                   +CS + I  + YG++V + L+ V+ L  + D
Sbjct:    73 LSRVQIVESEFKDLLEAMSIETGRLCLLGYCSEDCISSYNYGEKVSKMLEEVKELLSKKD 132

Query:   123 FKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTEEPXXXXXXXXXXXXXKTTLLTQ 182
             F+ VAQ +      E+ L    VG    ++  W  L  +              KTTLL  
Sbjct:   133 FRMVAQEIIHKV--EKKLIQTTVGLDKLVEMAWSSLMNDEIGTLGLYGMGGVGKTTLLES 190

Query:   183 INNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHE------KAQEIFKTMR 236
             +NN F+   + FD VIW VVS+D Q E +Q+ I  ++      E      KA  I+  + 
Sbjct:   191 LNNKFVELESEFDVVIWVVVSKDFQFEGIQDQILGRLRSDKEWERETESKKASLIYNNLE 250

Query:   237 NTKFVLL 243
               KFVLL
Sbjct:   251 RKKFVLL 257

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

Your Input: GSVIVG00034584001 SubName- Full=Chromosome chr9 scaffold_7, whole genome shotgun sequence; (898 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	243
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-16

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

 Score = 76.2 bits (188), Expect = 2e-16
 Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 10/106 (9%)

Query: 147 FQSTLDRVWRCLTEEP--VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR 204
            +  ++ +   L E    +G+VG+ GMGGVGKTTL  QI N       +FD V W VVS+
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSK 59

Query: 205 DLQLEKMQESIAKKIAFSSF-------HEKAQEIFKTMRNTKFVLL 243
                ++Q+ I +++             E A +I + +   +F+L+
Sbjct: 60  TYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLV 105

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	243
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.97
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.74
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.36
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.75
cd01128	249	rho_factor Transcription termination factor rho is	98.74
PTZ00202	550	tuzin; Provisional	98.66
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.64
PRK09376	416	rho transcription termination factor Rho; Provisio	98.61
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.42
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.4
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.37
TIGR00767	415	rho transcription termination factor Rho. Members	98.36
PRK08118	167	topology modulation protein; Reviewed	98.31
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.3
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.15
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.15
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.99
PRK13342	413	recombination factor protein RarA; Reviewed	97.98
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.96
PF05729	166	NACHT: NACHT domain	97.93
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.89
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.81
PRK07261	171	topology modulation protein; Provisional	97.78
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.76
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.71
KOG2028	554	consensus ATPase related to the helicase subunit o	97.65
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.62
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.58
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.57
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.54
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.52
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.51
PRK13341	725	recombination factor protein RarA/unknown domain f	97.49
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.46
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.45
PRK06696	223	uridine kinase; Validated	97.44
PRK12402	337	replication factor C small subunit 2; Reviewed	97.44
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.43
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.4
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.4
CHL00095	821	clpC Clp protease ATP binding subunit	97.35
PLN03025	319	replication factor C subunit; Provisional	97.35
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.33
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.32
PTZ00301	210	uridine kinase; Provisional	97.3
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.29
PRK15455	644	PrkA family serine protein kinase; Provisional	97.28
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.28
PRK06547	172	hypothetical protein; Provisional	97.27
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.26
PRK08233	182	hypothetical protein; Provisional	97.25
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.23
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.23
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.22
PRK05480	209	uridine/cytidine kinase; Provisional	97.22
PRK07667	193	uridine kinase; Provisional	97.22
PRK04040	188	adenylate kinase; Provisional	97.21
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.2
PF13173	128	AAA_14: AAA domain	97.2
PHA00729	226	NTP-binding motif containing protein	97.2
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.18
PRK10865	857	protein disaggregation chaperone; Provisional	97.17
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.17
PRK04195	482	replication factor C large subunit; Provisional	97.17
PRK08084	235	DNA replication initiation factor; Provisional	97.16
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.14
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.14
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.13
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.13
PRK05541	176	adenylylsulfate kinase; Provisional	97.12
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.11
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.11
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.1
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.09
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.09
PRK06762	166	hypothetical protein; Provisional	97.09
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.07
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.06
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.06
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.06
smart00382	148	AAA ATPases associated with a variety of cellular	97.06
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.06
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.04
PRK03839	180	putative kinase; Provisional	97.04
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.04
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.03
PRK08727	233	hypothetical protein; Validated	97.03
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.03
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	97.02
PHA02544	316	44 clamp loader, small subunit; Provisional	97.02
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.0
PF00004	132	AAA: ATPase family associated with various cellula	96.97
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.96
PRK13765	637	ATP-dependent protease Lon; Provisional	96.94
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.94
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	96.93
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.92
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.92
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.92
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.91
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.9
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.9
PRK06893	229	DNA replication initiation factor; Validated	96.9
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.88
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.88
TIGR00959	428	ffh signal recognition particle protein. This mode	96.84
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.84
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.83
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.83
PRK14527	191	adenylate kinase; Provisional	96.83
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.82
PRK12608	380	transcription termination factor Rho; Provisional	96.81
PRK13531	498	regulatory ATPase RavA; Provisional	96.79
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.79
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.79
PRK00625	173	shikimate kinase; Provisional	96.79
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.79
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.79
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.78
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.78
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.78
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.78
PRK10867	433	signal recognition particle protein; Provisional	96.77
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.77
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.77
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.77
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.75
PRK08116	268	hypothetical protein; Validated	96.75
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.75
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.74
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.74
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.74
PRK09087	226	hypothetical protein; Validated	96.74
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.73
PTZ00088	229	adenylate kinase 1; Provisional	96.73
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.71
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.71
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.69
CHL00181	287	cbbX CbbX; Provisional	96.69
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.69
PRK06217	183	hypothetical protein; Validated	96.68
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.68
PRK00131	175	aroK shikimate kinase; Reviewed	96.68
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.67
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.67
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.67
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.67
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.66
PRK10536	262	hypothetical protein; Provisional	96.66
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.65
PRK13975	196	thymidylate kinase; Provisional	96.65
PRK04841	903	transcriptional regulator MalT; Provisional	96.65
PRK00889	175	adenylylsulfate kinase; Provisional	96.64
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.63
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.63
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.63
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.62
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.61
PRK13947	171	shikimate kinase; Provisional	96.61
PRK14530	215	adenylate kinase; Provisional	96.61
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.61
PRK00300	205	gmk guanylate kinase; Provisional	96.6
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.6
PRK00698	205	tmk thymidylate kinase; Validated	96.59
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.58
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.58
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.57
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.57
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.57
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.57
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.56
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.56
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.56
PRK13949	169	shikimate kinase; Provisional	96.56
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.55
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.55
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.54
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.54
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.54
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.54
PRK13695	174	putative NTPase; Provisional	96.54
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.53
PRK05642	234	DNA replication initiation factor; Validated	96.53
PRK12377	248	putative replication protein; Provisional	96.52
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.52
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.51
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.5
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.49
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.49
PF07726	131	AAA_3: ATPase family associated with various cellu	96.49
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.48
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.47
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.47
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.45
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.45
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.44
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.44
PRK03846	198	adenylylsulfate kinase; Provisional	96.43
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.43
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.43
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.43
PRK05439	311	pantothenate kinase; Provisional	96.43
PRK07952	244	DNA replication protein DnaC; Validated	96.43
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.43
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.43
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.43
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.42
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.42
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.41
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.4
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.39
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.37
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.37
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.37
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.37
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.37
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.37
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.37
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.37
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.36
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.36
PRK06851	367	hypothetical protein; Provisional	96.34
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.34
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.33
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.32
COG1100	219	GTPase SAR1 and related small G proteins [General	96.32
PRK09354	349	recA recombinase A; Provisional	96.31
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.31
PRK05057	172	aroK shikimate kinase I; Reviewed	96.31
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.28
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.28
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.28
PRK04182	180	cytidylate kinase; Provisional	96.27
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.27
PLN02165	334	adenylate isopentenyltransferase	96.26
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.25
PLN02924	220	thymidylate kinase	96.25
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.25
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.23
PLN02200	234	adenylate kinase family protein	96.23
PRK06761	282	hypothetical protein; Provisional	96.22
PRK06620	214	hypothetical protein; Validated	96.22
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.2
cd02117	212	NifH_like This family contains the NifH (iron prot	96.2
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.19
PF13245	76	AAA_19: Part of AAA domain	96.19
PRK13946	184	shikimate kinase; Provisional	96.19
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.18
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.18
PRK00279	215	adk adenylate kinase; Reviewed	96.18
PRK13948	182	shikimate kinase; Provisional	96.17
PRK14529	223	adenylate kinase; Provisional	96.16
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.16
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.16
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.16
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.15
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.13
PRK13236	296	nitrogenase reductase; Reviewed	96.13
PRK13232	273	nifH nitrogenase reductase; Reviewed	96.13
PRK07940	394	DNA polymerase III subunit delta'; Validated	96.13
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.13
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.12
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.12
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.12
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.11
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.11
PRK09825	176	idnK D-gluconate kinase; Provisional	96.11
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.11
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.1
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	96.1
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.1
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.09
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.09
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.09
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	96.09
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.09
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.08
cd03116	159	MobB Molybdenum is an essential trace element in t	96.08
PRK08356	195	hypothetical protein; Provisional	96.06
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.06
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.06
cd02040	270	NifH NifH gene encodes component II (iron protein)	96.06
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.05
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.05
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.05
PRK14737	186	gmk guanylate kinase; Provisional	96.05
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.04
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.04
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.04
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.03
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.03
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.03
PLN02796	347	D-glycerate 3-kinase	96.03
PRK14532	188	adenylate kinase; Provisional	96.02
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.01
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.01
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.01
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.0
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.0
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.0
PRK13768	253	GTPase; Provisional	96.0
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	96.0
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.0
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	96.0
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.99
PRK14738	206	gmk guanylate kinase; Provisional	95.99
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	95.99
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.99
PRK03731	171	aroL shikimate kinase II; Reviewed	95.99
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.99
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.99
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.98
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.98
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	95.98
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.97
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	95.97
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.97
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.97
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.95
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.95
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.95
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.95
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.95
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.95
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.94
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.94
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	95.93
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	95.93
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.92
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.92
PRK01184	184	hypothetical protein; Provisional	95.92
PTZ00035	337	Rad51 protein; Provisional	95.91
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.91
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.91
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.91
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.91
PRK14531	183	adenylate kinase; Provisional	95.91
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.91
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.91
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.9
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	95.9
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.89
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.89
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.89
PHA02244	383	ATPase-like protein	95.88
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.88
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.88
PRK08939	306	primosomal protein DnaI; Reviewed	95.88
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.88
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.88
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.88
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.88
PRK06921	266	hypothetical protein; Provisional	95.87
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	95.87
PRK13231	264	nitrogenase reductase-like protein; Reviewed	95.86
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.86
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.86
PRK13976	209	thymidylate kinase; Provisional	95.85
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.85
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.85
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.85
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.85
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.85
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.84
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.84
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.84
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.83
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.83
PRK12422	445	chromosomal replication initiation protein; Provis	95.83
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.83
PHA02530	300	pseT polynucleotide kinase; Provisional	95.82
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.82
COG3899	849	Predicted ATPase [General function prediction only	95.82
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.82
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.82
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.82
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.81
cd03114	148	ArgK-like The function of this protein family is u	95.81
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.81
PRK09183	259	transposase/IS protein; Provisional	95.81
PRK02496	184	adk adenylate kinase; Provisional	95.81
PRK10416	318	signal recognition particle-docking protein FtsY;	95.81
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.81
PRK14974	336	cell division protein FtsY; Provisional	95.81
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.81
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	95.8
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.8
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	95.8
PRK14528	186	adenylate kinase; Provisional	95.79
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.79
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	95.78
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	95.78
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.78
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.77
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.77
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.77
PRK10865	857	protein disaggregation chaperone; Provisional	95.76
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.76
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.76
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.76
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.76
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	95.75
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.75
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.75
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.74
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.74
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.74
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.74
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.74
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.74
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.74
COG0714	329	MoxR-like ATPases [General function prediction onl	95.73
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.73
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	95.73
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.73
PRK06526	254	transposase; Provisional	95.72
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.71
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.71
PRK06067	234	flagellar accessory protein FlaH; Validated	95.71
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.71
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	95.7
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.7
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.7
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.7
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	95.7
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	95.7
PRK00149	450	dnaA chromosomal replication initiation protein; R	95.69
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	95.69
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	95.69
PLN02348	395	phosphoribulokinase	95.69
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.68
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	95.67
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.66
PRK13974	212	thymidylate kinase; Provisional	95.66
cd02032	267	Bchl_like This family of proteins contains bchL an	95.66
PLN02318	656	phosphoribulokinase/uridine kinase	95.65
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.65
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.65
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	95.63
PRK15453	290	phosphoribulokinase; Provisional	95.63
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.63
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.62
TIGR00101	199	ureG urease accessory protein UreG. This model rep	95.62
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.6
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	95.6
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.6
cd03246	173	ABCC_Protease_Secretion This family represents the	95.6
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	95.6
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	95.6
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.6
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.59
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.59
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.59
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	95.59
PRK10908	222	cell division protein FtsE; Provisional	95.59
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.59
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	95.59
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.58
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.58
PRK05973	237	replicative DNA helicase; Provisional	95.58
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.58
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.57
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.57
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	95.57
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.57
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.57
PRK08181	269	transposase; Validated	95.57
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	95.57
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.56
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.56
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.56
COG4240	300	Predicted kinase [General function prediction only	95.56
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.56
PRK14733	204	coaE dephospho-CoA kinase; Provisional	95.56
PRK13973	213	thymidylate kinase; Provisional	95.55
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.55
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	95.55
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	95.54
PRK14730	195	coaE dephospho-CoA kinase; Provisional	95.54
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.54
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.54
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	95.54
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	95.53
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.52
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	95.52
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.52
PRK04328	249	hypothetical protein; Provisional	95.52
PRK06835	329	DNA replication protein DnaC; Validated	95.51
CHL00176	638	ftsH cell division protein; Validated	95.5
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.5
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	95.5
PRK00089	292	era GTPase Era; Reviewed	95.5
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.5
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.5
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.49
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.49
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.48
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.47
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.47

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.97  E-value=2e-30  Score=245.89  Aligned_cols=239  Identities=31%  Similarity=0.488  Sum_probs=192.2

Q ss_pred             CCCccccccccchhhhhHHHhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchHhHHHHHHHHHHHHhHHHHHHHH
Q 038742            1 MGNACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAE   80 (243)
Q Consensus         1 m~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~L~~~l~~v~~~l~~a~~~~~~~~~~v~~Wl~~l~~~~~d~ed~ld~   80 (243)
                      |++++++.  +.++.+.+......+.+.++.+..|+..+..++.++++++.++... ..+..|.+.+++++|+++|+++.
T Consensus         1 ~~~~~s~~--~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~-~~~~~~~e~~~~~~~~~e~~~~~   77 (889)
T KOG4658|consen    1 MGACVSFG--VEKLDQLLNRESECLDGKDNYILELKENLKALQSALEDLDAKRDDL-ERRVNWEEDVGDLVYLAEDIIWL   77 (889)
T ss_pred             CCeEEEEe--hhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            56665444  5544444444444446677788899999999999999999887654 68899999999999999999999


Q ss_pred             H-HHhh----------------hhhhcCCCCCCchhhhhhHHHHHHHHHHHHHHHhcCCCccccc-cCCCCCCccCCCCC
Q 038742           81 I-IGKE----------------EEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGDFKDVAQ-TVPENPVDERPLPP  142 (243)
Q Consensus        81 ~-~~~~----------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~l~~~~~~~~~~~-~~~~~~~~~~~~~~  142 (243)
                      + .+..                +-|+.++|..+....+.+++++-++.+.++.+..++.+..+.. ..|......+|..+
T Consensus        78 ~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~  157 (889)
T KOG4658|consen   78 FLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQS  157 (889)
T ss_pred             HHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCc
Confidence            8 3321                1234466777788888899999999999999987776665543 23333444445444


Q ss_pred             cc-cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcc-cCCCCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          143 AV-VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLH-TSNNFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       143 ~~-vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .. ||.+..++++++.|.+++..++||+||||+||||||+.++|+. . ++.+||.++||+||++|+...|+.+|+..++
T Consensus       158 ~~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~-~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~  236 (889)
T KOG4658|consen  158 ESDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKF-DEVGNHFDGVIWVVVSKEFTTRKIQQTILERLG  236 (889)
T ss_pred             cccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhccc-chhcccCceEEEEEEcccccHHhHHHHHHHHhc
Confidence            44 9999999999999999888999999999999999999999998 6 8999999999999999999999999999988


Q ss_pred             C-------CCHHHHHHHHHHHhhcCceEEC
Q 038742          221 F-------SSFHEKAQEIFKTMRNTKFVLL  243 (243)
Q Consensus       221 ~-------~~~~~~~~~l~~~L~~kr~Llv  243 (243)
                      .       .+.++++..|.+.|++||||||
T Consensus       237 ~~~~~~~~~~~~~~~~~i~~~L~~krfllv  266 (889)
T KOG4658|consen  237 LLDEEWEDKEEDELASKLLNLLEGKRFLLV  266 (889)
T ss_pred             cCCcccchhhHHHHHHHHHHHhccCceEEE
Confidence            7       2346899999999999999986

>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=99.74  E-value=2.1e-17  Score=139.99  Aligned_cols=96  Identities=27%  Similarity=0.529  Sum_probs=87.4

Q ss_pred             cHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC---
Q 038742          147 FQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF---  221 (243)
Q Consensus       147 ~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~---  221 (243)
                      ||.++++|.+.|.+  ++.++|+|+||||+||||||..+|++. .++.+|+.++|+.++..++...++.+|+.+++.   
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            68899999999998  689999999999999999999999997 679999999999999999999999999999977   


Q ss_pred             -----CCHHHHHHHHHHHhhcCceEEC
Q 038742          222 -----SSFHEKAQEIFKTMRNTKFVLL  243 (243)
Q Consensus       222 -----~~~~~~~~~l~~~L~~kr~Llv  243 (243)
                           .+..+....|++.|.+++||||
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlV  106 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLV  106 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEE
T ss_pred             ccccccccccccccchhhhccccceee
Confidence                 2577899999999999999986

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=99.36  E-value=5.6e-12  Score=125.07  Aligned_cols=99  Identities=19%  Similarity=0.336  Sum_probs=71.2

Q ss_pred             CcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE---ecCc-----------
Q 038742          142 PAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV---VSRD-----------  205 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~---vs~~-----------  205 (243)
                      +.++|++..++++..+|.-  ++.++|+||||||+||||||+++|+..   ..+|+..+|+.   ++..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccc
Confidence            4589999999999998853  479999999999999999999999976   78899888763   2211           


Q ss_pred             cc-HHHHHHHHHHHhcC-CCH-HHHHHHHHHHhhcCceEEC
Q 038742          206 LQ-LEKMQESIAKKIAF-SSF-HEKAQEIFKTMRNTKFVLL  243 (243)
Q Consensus       206 ~~-~~~i~~~I~~~l~~-~~~-~~~~~~l~~~L~~kr~Llv  243 (243)
                      ++ ...++.+++.++.. .+. ......+++.|.+||+|||
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLV  301 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIF  301 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEE
Confidence            11 12345555555432 111 0112567888999999986

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.75  E-value=1.3e-07  Score=83.68  Aligned_cols=96  Identities=17%  Similarity=0.118  Sum_probs=72.6

Q ss_pred             CCcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      ++.++||++++++|...|.+    .....+-|+|++|+||||+++.++++. ......-..+++......+...++..|+
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l-~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL-EEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            46789999999999998843    344567899999999999999999987 4333223456666666667888999999


Q ss_pred             HHhcC-------CCHHHHHHHHHHHhhc
Q 038742          217 KKIAF-------SSFHEKAQEIFKTMRN  237 (243)
Q Consensus       217 ~~l~~-------~~~~~~~~~l~~~L~~  237 (243)
                      .++..       .+..++...+.+.+..
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~  135 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDE  135 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHh
Confidence            98864       2456677777887764

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

Probab=98.74  E-value=2.2e-08  Score=83.04  Aligned_cols=52  Identities=21%  Similarity=0.199  Sum_probs=46.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc--ccHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD--LQLEKMQESI  215 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~I  215 (243)
                      +-..++|+|++|+|||||++.+|++. ... +|+.++|+++++.  +++.++++.|
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~~~-~fdv~~~v~vI~er~~ev~el~~~I   68 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-TKN-HPEVYLIVLLIDERPEEVTDMQRSV   68 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-ccc-cCCeEEEEEEccCCCccHHHHHHHh
Confidence            55789999999999999999999987 433 8999999998887  7999999999

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.

>PTZ00202 tuzin; Provisional

Probab=98.66  E-value=3.2e-06  Score=74.72  Aligned_cols=87  Identities=17%  Similarity=0.100  Sum_probs=65.3

Q ss_pred             CCcccccHHHHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTEE---PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .+.|+||+.+...|...|.+.   ..+++.|.|++|+|||||++.+....     ++  .+++  ....+..++++.|+.
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l-----~~--~qL~--vNprg~eElLr~LL~  331 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE-----GM--PAVF--VDVRGTEDTLRSVVK  331 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC-----Cc--eEEE--ECCCCHHHHHHHHHH
Confidence            467999999999999988642   35699999999999999999999765     21  1222  222277999999999


Q ss_pred             HhcC---CCHHHHHHHHHHHhh
Q 038742          218 KIAF---SSFHEKAQEIFKTMR  236 (243)
Q Consensus       218 ~l~~---~~~~~~~~~l~~~L~  236 (243)
                      +||.   ....++...|.+.|.
T Consensus       332 ALGV~p~~~k~dLLrqIqeaLl  353 (550)
T PTZ00202        332 ALGVPNVEACGDLLDFISEACR  353 (550)
T ss_pred             HcCCCCcccHHHHHHHHHHHHH
Confidence            9997   333556666666653

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.64  E-value=3.5e-07  Score=80.15  Aligned_cols=94  Identities=14%  Similarity=0.159  Sum_probs=69.2

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccC-CCC---CEEEEEEecCcccHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTS-NNF---DFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~-~~F---~~~~wv~vs~~~~~~~i~~  213 (243)
                      +.++||+++++.|..+|..    .....+-|+|++|+|||++++.++++. ... ...   -..+|+......+...++.
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l-~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKEL-EEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH-HHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            5689999999999999864    345678999999999999999999875 211 111   1356777666667888999


Q ss_pred             HHHHHhc---C------CCHHHHHHHHHHHhh
Q 038742          214 SIAKKIA---F------SSFHEKAQEIFKTMR  236 (243)
Q Consensus       214 ~I~~~l~---~------~~~~~~~~~l~~~L~  236 (243)
                      .|+.++.   .      .+..++...+.+.+.
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~  125 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKELN  125 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHH
Confidence            9999883   2      234555666767664

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.61  E-value=6.4e-08  Score=84.32  Aligned_cols=61  Identities=20%  Similarity=0.183  Sum_probs=50.4

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc--cHHHHHHHHH
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL--QLEKMQESIA  216 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~--~~~~i~~~I~  216 (243)
                      +++++.. .+-.-..|+|++|+||||||+.||++. ... ||++++||++++.+  .+.+++++|.
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I-~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSI-TTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHH-Hhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            4444443 345678999999999999999999987 444 89999999999988  7888998886

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

Probab=98.42  E-value=6.9e-07  Score=70.33  Aligned_cols=47  Identities=26%  Similarity=0.365  Sum_probs=34.0

Q ss_pred             ccccHHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHhhhcccC
Q 038742          144 VVGFQSTLDRVWRCLT---EEPVGIVGLHGMGGVGKTTLLTQINNSFLHTS  191 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~  191 (243)
                      ++||+++.+++...|.   ....+.+-|+|.+|+|||+|++.++... ...
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~-~~~   51 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL-AER   51 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH-HHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH-Hhc
Confidence            7999999999999993   2367899999999999999999999987 444

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

Probab=98.40  E-value=8.2e-07  Score=66.02  Aligned_cols=78  Identities=17%  Similarity=0.246  Sum_probs=57.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhccc--CCCCCEEEEEEecCcccHHHHHHHHHHHhcC-----CCHHHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHT--SNNFDFVIWEVVSRDLQLEKMQESIAKKIAF-----SSFHEKAQEIFKTM  235 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v--~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~-----~~~~~~~~~l~~~L  235 (243)
                      -+.+.|+|.+|+|||++++.+.+.....  ...-..++|+.++...+...+...|+.+++.     .+..++...+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4678999999999999999999986110  0012346799998888999999999999988     25677888888888


Q ss_pred             hcCce
Q 038742          236 RNTKF  240 (243)
Q Consensus       236 ~~kr~  240 (243)
                      ...+.
T Consensus        84 ~~~~~   88 (131)
T PF13401_consen   84 DRRRV   88 (131)
T ss_dssp             HHCTE
T ss_pred             HhcCC
Confidence            76654

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

Probab=98.37  E-value=5.7e-06  Score=73.60  Aligned_cols=69  Identities=17%  Similarity=0.165  Sum_probs=57.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      +++++.++..+.+...|...  ..|.+.|++|+||||+|+.+.+.. .....|+.+.||+++++++..+++.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhc
Confidence            34678899999999998764  457779999999999999999987 5556788899999999887766543

>TIGR00767 rho transcription termination factor Rho

Probab=98.36  E-value=1.2e-06  Score=76.84  Aligned_cols=54  Identities=19%  Similarity=0.167  Sum_probs=46.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc--ccHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD--LQLEKMQESIAK  217 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~I~~  217 (243)
                      .-..++|+|++|+|||||++.+++.. . ..||+.++||.+++.  .++.++++.|..
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg  222 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKG  222 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhc
Confidence            45689999999999999999999986 3 337999999999876  789999999944

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

>PRK08118 topology modulation protein; Reviewed

Probab=98.31  E-value=4.1e-07  Score=71.13  Aligned_cols=52  Identities=29%  Similarity=0.534  Sum_probs=38.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccC-CCCCEEE----EEEecCcccHHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTS-NNFDFVI----WEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~-~~F~~~~----wv~vs~~~~~~~i~~~I~~  217 (243)
                      +.|.|+|++|+||||||+.+++.. ... -+||..+    |..+++. ....++.+++.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l-~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~~~   58 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL-NIPVHHLDALFWKPNWEGVPKE-EQITVQNELVK   58 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh-CCCceecchhhcccCCcCCCHH-HHHHHHHHHhc
Confidence            358999999999999999999997 544 4688888    5555543 44555555554

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

Probab=98.30  E-value=1.3e-05  Score=67.10  Aligned_cols=57  Identities=19%  Similarity=0.316  Sum_probs=41.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      ....++.|+|++|+|||||++.+++.. .. ..+ ..+|+. +...+..+++..|...++.
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~~-~~~~~~~~~l~~i~~~lG~   97 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKLV-NTRVDAEDLLRMVAADFGL   97 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeeee-CCCCCHHHHHHHHHHHcCC
Confidence            345689999999999999999999986 32 221 223433 3345778899999988876

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=98.15  E-value=2.1e-06  Score=69.77  Aligned_cols=44  Identities=30%  Similarity=0.423  Sum_probs=37.7

Q ss_pred             ccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |+||+.+++.|.+++..+..+.+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            68999999999999988778899999999999999999999975

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

>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=98.15  E-value=1e-05  Score=60.41  Aligned_cols=60  Identities=27%  Similarity=0.276  Sum_probs=46.0

Q ss_pred             cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc
Q 038742          145 VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ  207 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~  207 (243)
                      .|++..+..+...+.......+-|+|.+|+|||||++.+++.. .  ..-..++++..+....
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~-~--~~~~~v~~~~~~~~~~   60 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-F--RPGAPFLYLNASDLLE   60 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh-h--cCCCCeEEEehhhhhh
Confidence            3678888899998887667789999999999999999999986 2  2223456666655443

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.

>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=97.99  E-value=1.2e-05  Score=65.22  Aligned_cols=50  Identities=26%  Similarity=0.320  Sum_probs=35.1

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF  194 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F  194 (243)
                      ++++|.++-++.+.-++..     +.+.-+-.||++|+||||||..|.+..   ..+|
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~   78 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNF   78 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--E
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCe
Confidence            4589999888876655542     357788999999999999999999986   4555

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.98  E-value=3.8e-05  Score=68.61  Aligned_cols=46  Identities=30%  Similarity=0.341  Sum_probs=39.2

Q ss_pred             CcccccHHHHHH---HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDR---VWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..+..   +.+++.......+-++|++|+||||||+.+.+..
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            457898887666   8888877777788899999999999999999876

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

Probab=97.96  E-value=0.00012  Score=64.11  Aligned_cols=94  Identities=15%  Similarity=0.177  Sum_probs=74.1

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccC-CCCCEEEEEEecCcccHHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTS-NNFDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~-~~F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      +.+.+|+++++++...|..    +...-+-|+|.+|+|||+.++.+.+.. +.. ...+ ++.|+.-...++..++..|+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l-~~~~~~~~-~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEEL-EESSANVE-VVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHH-HhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence            4489999999999988854    233348899999999999999999987 332 2233 68888888889999999999


Q ss_pred             HHhcC-----CCHHHHHHHHHHHhhc
Q 038742          217 KKIAF-----SSFHEKAQEIFKTMRN  237 (243)
Q Consensus       217 ~~l~~-----~~~~~~~~~l~~~L~~  237 (243)
                      ++++.     ....+.-..+.+.+..
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~  120 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSK  120 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHh
Confidence            98855     5567777788888854

>PF05729 NACHT: NACHT domain

Probab=97.93  E-value=5e-05  Score=58.37  Aligned_cols=43  Identities=19%  Similarity=0.346  Sum_probs=32.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCC----CCEEEEEEecCccc
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNN----FDFVIWEVVSRDLQ  207 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~  207 (243)
                      +++.|.|.+|+||||+++.+.++. .....    +...+|.+.+....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~   47 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQL-AEEEPPPSKFPYPFFFSLRDISD   47 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHH-HhcCcccccceEEEEEeehhhhh
Confidence            578999999999999999999987 43333    45667777655443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.89  E-value=0.00046  Score=64.69  Aligned_cols=61  Identities=18%  Similarity=0.110  Sum_probs=46.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC---EEEEEEec
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD---FVIWEVVS  203 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~---~~~wv~vs  203 (243)
                      ++++|.+..+..+...+.......+.|+|++|+||||||+.+++.. .....+.   ..-|+.++
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEe
Confidence            4588999999998888876667789999999999999999999876 4333332   23566654

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.81  E-value=2.4e-05  Score=66.92  Aligned_cols=46  Identities=26%  Similarity=0.354  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|+++.++.|..++..     .....+-++|++|+|||+||+.+.+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~   54 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM   54 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999988863     345668899999999999999999976

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.78  E-value=5.4e-05  Score=59.34  Aligned_cols=50  Identities=18%  Similarity=0.349  Sum_probs=32.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccC-CCCCEEEEEEecCcccHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTS-NNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~-~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .|.|+|++|+||||||+.+.... ... -+.|...|-.-....+..++...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~-~~~~i~~D~~~~~~~~~~~~~~~~~~~~   52 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY-NCPVLHLDTLHFQPNWQERDDDDMIADI   52 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh-CCCeEecCCEEeccccccCCHHHHHHHH
Confidence            48999999999999999998775 322 245666665433333334443333

>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=97.76  E-value=2.6e-05  Score=57.13  Aligned_cols=23  Identities=26%  Similarity=0.524  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|.|++|+||||+|+.+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999975

...

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.71  E-value=0.00013  Score=63.10  Aligned_cols=46  Identities=28%  Similarity=0.349  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+++.++.+..++..     .....+-++|++|+||||||+.+.+..
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l   75 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM   75 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence            4589999999998887753     345678899999999999999999986

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

Probab=97.65  E-value=0.00015  Score=62.53  Aligned_cols=62  Identities=18%  Similarity=0.128  Sum_probs=44.5

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHh
Q 038742          153 RVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       153 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      -|.+++..+.+.-+-.||++|+||||||+.+.+..   +++-  ..+|..|..-.-..=+++|+++.
T Consensus       152 llrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~a  213 (554)
T KOG2028|consen  152 LLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQA  213 (554)
T ss_pred             HHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHHH
Confidence            34555566788999999999999999999999976   3332  56777776554444456666553

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.62  E-value=8.5e-05  Score=64.47  Aligned_cols=57  Identities=19%  Similarity=0.323  Sum_probs=46.0

Q ss_pred             CcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhhccc-----CCCCCEEEE
Q 038742          142 PAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSFLHT-----SNNFDFVIW  199 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v-----~~~F~~~~w  199 (243)
                      .+++|.++.++++++++..      ...+++.++|++|+||||||+.+.+.. ..     .+.|-..-|
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l-~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL-EEYSKTPEGRRYTFKW  118 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH-hhhcccccCceEEEEe
Confidence            3689999999999999965      246899999999999999999999987 33     224555556

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.58  E-value=0.00061  Score=65.24  Aligned_cols=80  Identities=15%  Similarity=0.116  Sum_probs=58.2

Q ss_pred             CCcccccHHHHHHHHHHhcC----C-CceEEEEEcCCCCcHHHHHHHHHhhhccc---CCCCC--EEEEEEecCcccHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE----E-PVGIVGLHGMGGVGKTTLLTQINNSFLHT---SNNFD--FVIWEVVSRDLQLEK  210 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~----~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~v---~~~F~--~~~wv~vs~~~~~~~  210 (243)
                      ++.+.|||++++.|...|..    . ...++-|.|++|.|||++++.|.+.. ..   .....  .+++|....-.++..
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrEL-qeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLL-QHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHH-HHHHhhccCCCceEEEEeCCccCCHHH
Confidence            45678999999999988864    2 33577899999999999999998875 21   11222  145565555557788


Q ss_pred             HHHHHHHHhcC
Q 038742          211 MQESIAKKIAF  221 (243)
Q Consensus       211 i~~~I~~~l~~  221 (243)
                      ++..|..+|..
T Consensus       833 IYqvI~qqL~g  843 (1164)
T PTZ00112        833 AYQVLYKQLFN  843 (1164)
T ss_pred             HHHHHHHHHcC
Confidence            88888888844

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

Probab=97.57  E-value=0.00085  Score=62.47  Aligned_cols=51  Identities=27%  Similarity=0.367  Sum_probs=42.9

Q ss_pred             CCcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC
Q 038742          141 PPAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF  194 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F  194 (243)
                      +.+.+|.++..+.|++.|--      -+-+++..||++|+|||+|++.|....   ..+|
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf  378 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF  378 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE
Confidence            45569999999999998842      256799999999999999999999976   5566

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

Probab=97.54  E-value=0.0052  Score=57.45  Aligned_cols=47  Identities=21%  Similarity=0.337  Sum_probs=41.0

Q ss_pred             CCcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+.+|+++-++.|++++--      .+-+++..+|++|||||++|+.|....
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL  462 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL  462 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh
Confidence            45679999999999998842      267899999999999999999999987

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

Probab=97.52  E-value=0.00032  Score=60.73  Aligned_cols=75  Identities=24%  Similarity=0.296  Sum_probs=63.8

Q ss_pred             CCcccccHHHHHHHHHHhcCCC---ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTEEP---VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~~~---~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .+.+.+|+.+...+..++.++.   .+.|-|.|-.|.|||.+.+.+.+..   ..   ..+|+++-.+|+.+.++..|+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~---~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NL---ENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CC---cceeeehHHhccHHHHHHHHHH
Confidence            3678899999999999998764   3445688999999999999999976   22   3589999999999999999999


Q ss_pred             HhcC
Q 038742          218 KIAF  221 (243)
Q Consensus       218 ~l~~  221 (243)
                      +++.
T Consensus        79 ~~~~   82 (438)
T KOG2543|consen   79 KSQL   82 (438)
T ss_pred             Hhcc
Confidence            9963

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.51  E-value=0.00021  Score=58.24  Aligned_cols=55  Identities=16%  Similarity=0.131  Sum_probs=40.6

Q ss_pred             cHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          147 FQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      .+..++.+..++.......+-|+|..|+||||||+.+++..   .......+++.++.
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~---~~~~~~~~~i~~~~   76 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAA---EERGKSAIYLPLAE   76 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHH---HhcCCcEEEEeHHH
Confidence            45577778877766667789999999999999999999986   22333445555443

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.

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

Probab=97.49  E-value=0.00044  Score=65.74  Aligned_cols=50  Identities=36%  Similarity=0.450  Sum_probs=39.8

Q ss_pred             CcccccHHHHH---HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC
Q 038742          142 PAVVGFQSTLD---RVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF  194 (243)
Q Consensus       142 ~~~vG~~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F  194 (243)
                      ++++|.+..+.   .+.+.+..++...+-++|++|+||||||+.+++..   ..+|
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f   80 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHF   80 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcc
Confidence            34789888774   56667777777778899999999999999999876   4555

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

Probab=97.46  E-value=0.0024  Score=54.16  Aligned_cols=94  Identities=14%  Similarity=0.224  Sum_probs=63.9

Q ss_pred             HHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHhhhcccCCC-C--CEEEEEEecCcccHHHHHHHHHHHhcC--
Q 038742          150 TLDRVWRCLTEE---PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN-F--DFVIWEVVSRDLQLEKMQESIAKKIAF--  221 (243)
Q Consensus       150 ~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~-F--~~~~wv~vs~~~~~~~i~~~I~~~l~~--  221 (243)
                      .++.+.++|...   ...-+.|||..|+|||++++..........+. -  -.++-|.....++...+...|+.+++.  
T Consensus        45 ~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~  124 (302)
T PF05621_consen   45 ALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPY  124 (302)
T ss_pred             HHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCccc
Confidence            345555555442   45678999999999999999999876211110 1  136667788889999999999999998  


Q ss_pred             ---CCHHHHHHHHHHHhhc--CceEEC
Q 038742          222 ---SSFHEKAQEIFKTMRN--TKFVLL  243 (243)
Q Consensus       222 ---~~~~~~~~~l~~~L~~--kr~Llv  243 (243)
                         .+...+.......|+.  -|.|||
T Consensus       125 ~~~~~~~~~~~~~~~llr~~~vrmLII  151 (302)
T PF05621_consen  125 RPRDRVAKLEQQVLRLLRRLGVRMLII  151 (302)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence               4445555555556543  455553

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

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.45  E-value=0.00061  Score=58.37  Aligned_cols=46  Identities=22%  Similarity=0.329  Sum_probs=41.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+..++.....+.+-++|.+|+||||+|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4478999999999999988766678999999999999999999875

>PRK06696 uridine kinase; Validated

Probab=97.44  E-value=0.00028  Score=57.72  Aligned_cols=42  Identities=14%  Similarity=0.215  Sum_probs=34.7

Q ss_pred             ccHHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          146 GFQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       146 G~~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+.-+++|.+.+..   .+..+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            356667777777753   468899999999999999999999876

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.44  E-value=0.00019  Score=62.01  Aligned_cols=46  Identities=17%  Similarity=0.345  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+..++..+..+.+-++|++|+||||+|+.+.+..
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4588999999999999988776678899999999999999998875

>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=97.43  E-value=0.0014  Score=52.46  Aligned_cols=56  Identities=18%  Similarity=0.211  Sum_probs=36.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC-cccHHHHHHHHHHHhcC
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR-DLQLEKMQESIAKKIAF  221 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~I~~~l~~  221 (243)
                      .+||.++|+.|+||||.+-.+.... ..+  =..+..++... .....+=++..++.++.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~v   57 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGV   57 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhcc
Confidence            3789999999999999999998887 433  23456666432 22344445556666654

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 ....

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

Probab=97.40  E-value=0.00038  Score=60.67  Aligned_cols=50  Identities=30%  Similarity=0.382  Sum_probs=37.6

Q ss_pred             cccccHHHH---HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC
Q 038742          143 AVVGFQSTL---DRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD  195 (243)
Q Consensus       143 ~~vG~~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~  195 (243)
                      +++|.+.-+   .-|-.++..+++.-.-.||++|+||||||+.+....   ..+|.
T Consensus        25 e~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~   77 (436)
T COG2256          25 EVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAFE   77 (436)
T ss_pred             HhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCceE
Confidence            467766533   345566667788888899999999999999999865   55553

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.40  E-value=0.001  Score=57.16  Aligned_cols=77  Identities=14%  Similarity=0.341  Sum_probs=56.1

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhhc---ccCCCCCEEEEEE-ecCcccHHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSFL---HTSNNFDFVIWEV-VSRDLQLEKMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~---~v~~~F~~~~wv~-vs~~~~~~~i~~~I~  216 (243)
                      .+++|-+...+.+.+.+..++ .+..-++|+.|+||||+|+.++....   ....|+|...|.. -+.......| +++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHH
Confidence            357899999999999998765 45778999999999999999998641   1245778877766 3444555553 3444


Q ss_pred             HHh
Q 038742          217 KKI  219 (243)
Q Consensus       217 ~~l  219 (243)
                      +.+
T Consensus        83 ~~~   85 (313)
T PRK05564         83 EEV   85 (313)
T ss_pred             HHH
Confidence            533

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.35  E-value=0.00025  Score=68.67  Aligned_cols=46  Identities=26%  Similarity=0.356  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++||+.+++.+++.|.....+-+-++|.+|+|||++|+.+....
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3479999999999999987654455699999999999999998875

>PLN03025 replication factor C subunit; Provisional

Probab=97.35  E-value=0.00069  Score=58.43  Aligned_cols=46  Identities=22%  Similarity=0.304  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++.++.|..++...+.+-+-++|++|+||||+|..+.+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3478999988888888877766667799999999999999999875

>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=97.33  E-value=0.00042  Score=57.27  Aligned_cols=31  Identities=26%  Similarity=0.209  Sum_probs=22.3

Q ss_pred             EEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          168 LHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       168 I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      |+||+|+||||+++.+.+..   ...-..++-|+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~---~~~~~~~~~vN   31 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL---ESNGRDVYIVN   31 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH---TTT-S-EEEEE
T ss_pred             CCCCCCCCHHHHHHHHHHHH---HhccCCceEEE
Confidence            68999999999999999987   33333344454

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_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=97.32  E-value=0.0002  Score=52.59  Aligned_cols=21  Identities=33%  Similarity=0.743  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.|.|..|+||||+|+.+...
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            789999999999999999887

...

>PTZ00301 uridine kinase; Provisional

Probab=97.30  E-value=0.00034  Score=56.64  Aligned_cols=25  Identities=32%  Similarity=0.654  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            5799999999999999999998765

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.29  E-value=0.00038  Score=53.39  Aligned_cols=25  Identities=36%  Similarity=0.477  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|.||+|+|||||++.+.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            3468999999999999999999887

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.28  E-value=0.00037  Score=63.94  Aligned_cols=45  Identities=22%  Similarity=0.381  Sum_probs=40.1

Q ss_pred             cccccHHHHHHHHHHhc------CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT------EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.++.++.|++.|.      +.+-+++-++|++|+||||||+.+.+-.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            47999999999999993      3467899999999999999999999976

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.28  E-value=0.00035  Score=67.77  Aligned_cols=46  Identities=22%  Similarity=0.283  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++||+.++..++..|......-+-++|.+|+||||+|..+....
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999999988765566699999999999999999875

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.27  E-value=0.0005  Score=53.94  Aligned_cols=34  Identities=26%  Similarity=0.224  Sum_probs=28.3

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          154 VWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       154 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...+......+|+|.|+.|+||||+|+.+....
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444556678899999999999999999998865

>TIGR00763 lon ATP-dependent protease La

Probab=97.26  E-value=0.0056  Score=59.11  Aligned_cols=47  Identities=28%  Similarity=0.343  Sum_probs=38.4

Q ss_pred             CCcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+++|.+..++.+.+++..      .+..++.++|++|+|||++|+.+.+..
T Consensus       319 ~~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       319 DEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999999998886632      134589999999999999999999976

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.

>PRK08233 hypothetical protein; Provisional

Probab=97.25  E-value=0.00029  Score=55.29  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|.|.+|+||||||+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999876

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.23  E-value=0.0022  Score=54.37  Aligned_cols=25  Identities=44%  Similarity=0.716  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+++|+.|+||||++..+....
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999998876

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

Probab=97.23  E-value=0.00044  Score=66.22  Aligned_cols=46  Identities=24%  Similarity=0.315  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++||+++++.++..|......-+-++|.+|+|||++|+.+....
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999999987655556799999999999999999875

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

Probab=97.22  E-value=0.00029  Score=56.31  Aligned_cols=23  Identities=39%  Similarity=0.703  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ||+|.|.+|+||||+|+.+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999999987

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 ....

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.22  E-value=0.00033  Score=56.55  Aligned_cols=26  Identities=35%  Similarity=0.520  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|.|..|+|||||++.+....
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999999865

>PRK07667 uridine kinase; Provisional

Probab=97.22  E-value=0.00052  Score=54.84  Aligned_cols=37  Identities=22%  Similarity=0.455  Sum_probs=30.1

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|.+.+..  ....+|+|-|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4566666654  245799999999999999999999875

>PRK04040 adenylate kinase; Provisional

Probab=97.21  E-value=0.0012  Score=52.53  Aligned_cols=25  Identities=36%  Similarity=0.582  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|++|+||||+++.+....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.20  E-value=0.00036  Score=63.78  Aligned_cols=46  Identities=26%  Similarity=0.272  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+...+.|.+++..+++ +.+-++|++|+||||+|+.+.+..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999988764 466999999999999999999886

>PF13173 AAA_14: AAA domain

Probab=97.20  E-value=0.00072  Score=50.19  Aligned_cols=41  Identities=29%  Similarity=0.361  Sum_probs=31.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ  207 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~  207 (243)
                      -+++.|.|+.|+|||||+++++.+. .   .....+++.......
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~-~---~~~~~~yi~~~~~~~   42 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL-L---PPENILYINFDDPRD   42 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh-c---ccccceeeccCCHHH
Confidence            4689999999999999999999987 2   345567777655433

>PHA00729 NTP-binding motif containing protein

Probab=97.20  E-value=0.00064  Score=55.43  Aligned_cols=35  Identities=17%  Similarity=0.249  Sum_probs=28.5

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          153 RVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       153 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++.+...+...|.|.|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555666666789999999999999999998874

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

Probab=97.18  E-value=0.00058  Score=57.07  Aligned_cols=46  Identities=28%  Similarity=0.377  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++-++++-=.+..     +.+--+-++|++|.||||||..|.+..
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em   76 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL   76 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence            4579999988888777754     357789999999999999999999987

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.17  E-value=0.00054  Score=66.61  Aligned_cols=46  Identities=24%  Similarity=0.351  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++||+.++..++..|....-.-+-++|.+|+||||||..+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            3479999999999999988765566699999999999999999875

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.17  E-value=0.0015  Score=50.12  Aligned_cols=43  Identities=16%  Similarity=0.394  Sum_probs=33.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      +|.|-|++|+||||+|+.+.++. .  =+|           .+...++++|++..+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~-g--l~~-----------vsaG~iFR~~A~e~gm   44 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL-G--LKL-----------VSAGTIFREMARERGM   44 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh-C--Cce-----------eeccHHHHHHHHHcCC
Confidence            78999999999999999999987 1  111           1335688899888776

>PRK04195 replication factor C large subunit; Provisional

Probab=97.17  E-value=0.00033  Score=63.86  Aligned_cols=46  Identities=28%  Similarity=0.453  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+...+.+..|+..    ...+.+-|+|++|+||||+|+.+.++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999999999864    236789999999999999999999976

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.16  E-value=0.0029  Score=52.20  Aligned_cols=60  Identities=18%  Similarity=0.194  Sum_probs=39.0

Q ss_pred             CcccccHH-HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          142 PAVVGFQS-TLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       142 ~~~vG~~~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      +.++|.+. .+..+..+........+-|+|+.|+|||+|++.+++.. .  ..-..+.+++++.
T Consensus        23 ~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~-~--~~~~~v~y~~~~~   83 (235)
T PRK08084         23 SFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAEL-S--QRGRAVGYVPLDK   83 (235)
T ss_pred             ccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH-H--hCCCeEEEEEHHH
Confidence            34456333 34444444444455688999999999999999999976 2  2223456666654

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.14  E-value=0.00055  Score=60.15  Aligned_cols=46  Identities=24%  Similarity=0.315  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+++.+++|.+.+..             ...+-+-++|++|+|||+||+.+++..
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence            4578999999999887632             124568899999999999999999976

Many proteins may score above the trusted cutoff because an internal

>TIGR00235 udk uridine kinase

Probab=97.14  E-value=0.00041  Score=55.99  Aligned_cols=26  Identities=35%  Similarity=0.491  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+|+|+|+.|+|||||++.+....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999875

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.13  E-value=0.0052  Score=55.20  Aligned_cols=57  Identities=21%  Similarity=0.220  Sum_probs=35.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC-cccHHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR-DLQLEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~I~~~l~~  221 (243)
                      +..+|.++|.+|+||||++..+.... ... .+ .++-|+... .+...+-++.+..+++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L-~~~-g~-kV~lV~~D~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF-KKK-GL-KVGLVAADTYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-HHc-CC-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence            36799999999999999999999876 422 23 233333321 12234445556666554

>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=97.13  E-value=0.00057  Score=57.58  Aligned_cols=94  Identities=10%  Similarity=0.012  Sum_probs=68.9

Q ss_pred             hhhhHHHhhhc----hhhHHHHHHHHHHHHHHHHHHHHHHHHH-hhhchHhHHHHHHHHHHHHhHHHHHHHHH--HHhhh
Q 038742           14 TISHCLDCITI----LLPLRTEFQKLIEARNDVQIRVLVAEQR-QWRRLQQVQGWLSRVQDVEKEVPRLLAEI--IGKEE   86 (243)
Q Consensus        14 l~~~l~~~~~~----~~~l~~~l~~L~~~l~~v~~~l~~a~~~-~~~~~~~v~~Wl~~l~~~~~d~ed~ld~~--~~~~~   86 (243)
                      +.+.+-++...    +..++.+++-++.++..++.|+.+.-+. ..+. +....+..++...||++|.++|.|  .....
T Consensus       301 lL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh-~~~ed~a~~ii~kAyevEYVVDaCi~k~~P~  379 (402)
T PF12061_consen  301 LLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKH-DTNEDCATQIIRKAYEVEYVVDACISKSVPH  379 (402)
T ss_pred             HHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhh-hhhhhHHHHHHHHHhheeeeeehhhcCCCcH
Confidence            34444444444    8899999999999999999999987444 5566 449999999999999999999988  34444


Q ss_pred             hhhcCCCCCCchhhhhhHHHHHHHHHHHH
Q 038742           87 EILGGFCSGNSIERHKYGKRVVESLKNVQ  115 (243)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~i~~~~~~i~  115 (243)
                      +|..+|       -+.+..+|..++++++
T Consensus       380 Wcl~~W-------L~dIieei~~ik~~i~  401 (402)
T PF12061_consen  380 WCLERW-------LLDIIEEITCIKAKIQ  401 (402)
T ss_pred             HHHHHH-------HHHHHHHHHHHHHHhc
Confidence            554332       2466667766666654

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.12  E-value=0.00064  Score=53.28  Aligned_cols=36  Identities=22%  Similarity=0.385  Sum_probs=28.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEE
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWE  200 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv  200 (243)
                      +..+|.+.|+.|+||||+|+.++...   ..++...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            34689999999999999999999987   4455544444

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

Probab=97.11  E-value=0.0039  Score=59.73  Aligned_cols=45  Identities=24%  Similarity=0.333  Sum_probs=38.3

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++||+.++..+++.|....-.-+-++|.+|+|||++|+.+....
T Consensus       187 ~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        187 PLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             cCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999987543444689999999999999999864

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.0023  Score=61.60  Aligned_cols=46  Identities=26%  Similarity=0.361  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+++..+++. .+-++|+.|+||||+|+.+.+..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45899999999999999887655 45899999999999999999876

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.10  E-value=0.00057  Score=60.64  Aligned_cols=46  Identities=26%  Similarity=0.317  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|+++.++++.+.+..             ...+-|-++|++|+|||+||+.+.+..
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence            4578999999998887632             235668899999999999999999976

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.09  E-value=0.00081  Score=61.03  Aligned_cols=46  Identities=24%  Similarity=0.320  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+.....|...+..+.+ +.+-++|++|+||||+|+.+.+..
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999988888888887765 568899999999999999998875

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.09  E-value=0.00052  Score=54.11  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.|+|++|+||||+++.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998764

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.

>PRK06762 hypothetical protein; Provisional

Probab=97.09  E-value=0.00055  Score=53.06  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998864

>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=97.07  E-value=0.00053  Score=45.20  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +|.|.|..|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999987

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.

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

Probab=97.06  E-value=0.0058  Score=49.72  Aligned_cols=48  Identities=21%  Similarity=0.153  Sum_probs=36.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC------CEEEEEEecCcccHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF------DFVIWEVVSRDLQLEKMQ  212 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F------~~~~wv~vs~~~~~~~i~  212 (243)
                      .-.++.|+|.+|+|||+|+..+....   ..+-      ..++|+.....+++..+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            46799999999999999999987754   2222      457899888777766554

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.06  E-value=0.001  Score=58.52  Aligned_cols=46  Identities=24%  Similarity=0.326  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+.+.+..+++ +.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987654 567899999999999999998875

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.06  E-value=0.0035  Score=55.07  Aligned_cols=25  Identities=36%  Similarity=0.511  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.++.++|+.|+||||++..+....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999875

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.06  E-value=0.00078  Score=49.48  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.|+|++|+||||+++.+....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc
Confidence            578999999999999999999976

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.

>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=97.06  E-value=0.00059  Score=51.30  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|-++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            57899999999999999999765

...

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.04  E-value=0.00087  Score=65.26  Aligned_cols=46  Identities=24%  Similarity=0.362  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++||+.++..++..|......-+-++|.+|+|||++|..+..+.
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            3479999999999999987655556689999999999999998875

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.

>PRK03839 putative kinase; Provisional

Probab=97.04  E-value=0.00058  Score=53.75  Aligned_cols=23  Identities=35%  Similarity=0.624  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+++.+.+..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999976

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.04  E-value=0.0016  Score=52.46  Aligned_cols=48  Identities=19%  Similarity=0.198  Sum_probs=36.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      .-+++-|+|.+|+|||+|+.++..+.   ...-..++|+.... +++..+.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHH
Confidence            46799999999999999999988765   33456788998865 66555443

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.03  E-value=0.001  Score=54.58  Aligned_cols=27  Identities=33%  Similarity=0.497  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+|+|.|..|.|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999999876

>PRK08727 hypothetical protein; Validated

Probab=97.03  E-value=0.002  Score=53.07  Aligned_cols=58  Identities=14%  Similarity=0.101  Sum_probs=38.6

Q ss_pred             ccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          144 VVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      ++|-.+....+..+........+.|+|..|+|||+|++.+++..   ..+...+.+++..+
T Consensus        22 ~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~---~~~~~~~~y~~~~~   79 (233)
T PRK08727         22 IAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAA---EQAGRSSAYLPLQA   79 (233)
T ss_pred             cCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEeHHH
Confidence            34545555555544444444569999999999999999999876   22333456666544

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

Probab=97.03  E-value=0.0051  Score=59.26  Aligned_cols=47  Identities=30%  Similarity=0.325  Sum_probs=39.9

Q ss_pred             CCcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+.+|.++.++.|+++|.-      .+-.++.++|++|+||||+|+.+....
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45579999999999988862      245689999999999999999999865

>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=97.02  E-value=0.0061  Score=46.43  Aligned_cols=108  Identities=8%  Similarity=0.135  Sum_probs=82.6

Q ss_pred             ccccccccchhhhhHHHhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhchHhHHHHHHHHHHHHhHHHHHHHHHHH
Q 038742            4 ACSVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIG   83 (243)
Q Consensus         4 ~~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~L~~~l~~v~~~l~~a~~~~~~~~~~v~~Wl~~l~~~~~d~ed~ld~~~~   83 (243)
                      ++.++++++.++..+.+...+....+.-+++|.+.++.+...+.+.+......|..-+.-++++.+...++++++++|.+
T Consensus         8 gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk   87 (147)
T PF05659_consen    8 GAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELVEKCSK   87 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhcc
Confidence            45578888888888888888888889999999999999999999888877655444478899999999999999988722


Q ss_pred             hhhhhhcCCCCCCchhhhhhHHHHHHHHHHHHHHHh
Q 038742           84 KEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRK  119 (243)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~l~~  119 (243)
                      ..+        .++...++.+++|+++.+.+.....
T Consensus        88 ~~r--------~n~~kk~~y~~Ki~~le~~l~~f~~  115 (147)
T PF05659_consen   88 VRR--------WNLYKKPRYARKIEELEESLRRFIQ  115 (147)
T ss_pred             ccH--------HHHHhhHhHHHHHHHHHHHHHHHhc
Confidence            211        2334556677888777777765543

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 [].

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.02  E-value=0.00094  Score=57.34  Aligned_cols=46  Identities=13%  Similarity=0.082  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+...+.+..++..++ ..++-++|++|+||||+|+.+++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            457999999999999998765 4577779999999999999999875

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

Probab=97.00  E-value=0.0032  Score=52.88  Aligned_cols=54  Identities=22%  Similarity=0.428  Sum_probs=41.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC-CEEEEEEecCcc-cHHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF-DFVIWEVVSRDL-QLEKMQESIAKK  218 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F-~~~~wv~vs~~~-~~~~i~~~I~~~  218 (243)
                      +-.-++|.|-.|+|||||++.+++..   +.+| +.++++.+.+.. .+.++.+++...
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~  123 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKES  123 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhc
Confidence            45679999999999999999999987   4455 556777787755 466777776553

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.

>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=96.97  E-value=0.00073  Score=49.78  Aligned_cols=22  Identities=41%  Similarity=0.582  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |-|+|++|+||||+|+.+.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5689999999999999999986

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 ....

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.96  E-value=0.0007  Score=54.19  Aligned_cols=25  Identities=28%  Similarity=0.500  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|-||=|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999987

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.94  E-value=0.0017  Score=60.93  Aligned_cols=75  Identities=11%  Similarity=0.128  Sum_probs=57.9

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      +.++|.++.++.|...+...  +.+-++|.+|+||||+|+.+.+.. . ..+|+..+|..- .+.+...+++.+...++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l-~-~~~~~~~~~~~n-p~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELL-P-KEELQDILVYPN-PEDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHc-C-hHhHHHheEeeC-CCcchHHHHHHHHHhcCH
Confidence            45789999888888877665  368899999999999999999875 2 234677788655 344778888888887765

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.94  E-value=0.00062  Score=54.44  Aligned_cols=23  Identities=39%  Similarity=0.668  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|..|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998753

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.

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

Probab=96.93  E-value=0.01  Score=53.00  Aligned_cols=99  Identities=18%  Similarity=0.269  Sum_probs=69.2

Q ss_pred             CCcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCC-CCCEEEEEEecCcccHHHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSN-NFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~-~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      +..++||+.++..+.+++..    +...-+=|.|.+|.|||.+...++.+. .-.. .| +++.+....--.+..++..|
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~-~~~~~~~-~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSL-SKSSKSP-VTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhh-hhhcccc-eeEEEeeccccchHHHHHHH
Confidence            45689999999999998864    356677789999999999999999987 2211 22 23444333223566777777


Q ss_pred             HHHh----cC-CCHHHHHHHHHHHhhcCceE
Q 038742          216 AKKI----AF-SSFHEKAQEIFKTMRNTKFV  241 (243)
Q Consensus       216 ~~~l----~~-~~~~~~~~~l~~~L~~kr~L  241 (243)
                      ...+    .. ....+...++.++...++++
T Consensus       227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~  257 (529)
T KOG2227|consen  227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFM  257 (529)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhcccce
Confidence            7766    22 34467778888888777643

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.92  E-value=0.0024  Score=51.63  Aligned_cols=26  Identities=35%  Similarity=0.604  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.+|||.|..|+||||+|+.+++..
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999987

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.92  E-value=0.00093  Score=55.94  Aligned_cols=45  Identities=22%  Similarity=0.281  Sum_probs=32.1

Q ss_pred             cccccHHHHHHHHH---HhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWR---CLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~---~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.+..++.+.+   +..-            ....-+-++|++|+||||+|+.+.+..
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            47888776655543   3211            134567899999999999999998764

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.92  E-value=0.0023  Score=59.97  Aligned_cols=74  Identities=14%  Similarity=0.146  Sum_probs=52.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCC-CCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSN-NFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~-~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      ++++|.++..+.+...+....  -+-++|++|+||||||+.+.+..   .. .|...+.+ .....+...+++.+...++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l---~~~~~~~~~~~-~n~~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELL---PDEELEDILVY-PNPEDPNMPRIVEVPAGEG   91 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHc---CchhheeEEEE-eCCCCCchHHHHHHHHhhc
Confidence            457899988888887777653  44499999999999999999876   33 33333322 2223456777888888776


Q ss_pred             C
Q 038742          221 F  221 (243)
Q Consensus       221 ~  221 (243)
                      .
T Consensus        92 ~   92 (608)
T TIGR00764        92 R   92 (608)
T ss_pred             h
Confidence            5

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

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.91  E-value=0.0069  Score=53.49  Aligned_cols=26  Identities=42%  Similarity=0.580  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|+++|++|+||||++..+....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            35799999999999999999998765

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

Probab=96.90  E-value=0.0049  Score=51.37  Aligned_cols=26  Identities=35%  Similarity=0.563  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|-++||+|+||||..|.++.+.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHH
Confidence            45688899999999999999999998

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.90  E-value=0.0046  Score=56.71  Aligned_cols=46  Identities=22%  Similarity=0.325  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-+..++.|.+++..+++. .+-++|+.|+||||+|+.+.+..
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999887654 57899999999999999998876

>PRK06893 DNA replication initiation factor; Validated

Probab=96.90  E-value=0.0033  Score=51.63  Aligned_cols=39  Identities=23%  Similarity=0.275  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      ..+.+-++|++|+|||+|++.+.+.. ..  +...+.+++++
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~-~~--~~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHY-LL--NQRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH-HH--cCCCeEEeeHH
Confidence            34578999999999999999999986 22  22345677664

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.88  E-value=0.0045  Score=55.07  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++.++|++|+||||++..+....
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.88  E-value=0.0032  Score=53.28  Aligned_cols=37  Identities=27%  Similarity=0.267  Sum_probs=30.0

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++...++...+..++.|+|.+|.|||||+..+.+..
T Consensus        92 a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         92 AERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3334445555589999999999999999999999976

>TIGR00959 ffh signal recognition particle protein

Probab=96.84  E-value=0.013  Score=52.44  Aligned_cols=26  Identities=27%  Similarity=0.448  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|.+|+||||.+..+....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            36799999999999999988887764

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.

>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=96.84  E-value=0.00078  Score=54.99  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|..|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999876

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

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.83  E-value=0.0058  Score=54.81  Aligned_cols=25  Identities=44%  Similarity=0.695  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+++.++|++|+||||++..+....
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~  245 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY  245 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999998887765

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.83  E-value=0.0015  Score=59.01  Aligned_cols=46  Identities=22%  Similarity=0.317  Sum_probs=40.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..+..|..++..+++. .+-++|+.|+||||+|+.+.+..
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45899999999999999888754 68899999999999999998876

>PRK14527 adenylate kinase; Provisional

Probab=96.83  E-value=0.0024  Score=50.78  Aligned_cols=26  Identities=23%  Similarity=0.293  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.|+|++|+||||+|+.+.+..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998775

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

Probab=96.82  E-value=0.0034  Score=52.46  Aligned_cols=49  Identities=20%  Similarity=0.186  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .-+++.|.|.+|+|||+++.+.....   ..+.+.++||+.++  ++..+.+..
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e--~~~~l~~~~   70 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEE--SPEELLENA   70 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecC--CHHHHHHHH
Confidence            57899999999999999999998876   55588899999887  445555544

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.81  E-value=0.0065  Score=53.23  Aligned_cols=70  Identities=17%  Similarity=0.131  Sum_probs=50.3

Q ss_pred             HHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCE-EEEEEecCcc-cHHHHHHHHHHHhcC
Q 038742          150 TLDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDF-VIWEVVSRDL-QLEKMQESIAKKIAF  221 (243)
Q Consensus       150 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~-~~wv~vs~~~-~~~~i~~~I~~~l~~  221 (243)
                      ....+++.+.. .+-.-+.|+|.+|+|||||++.+.+.. .. .+=+. ++|+.+.+.. ++.++++.+...+..
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i-~~-~~~dv~~vv~lIgER~~EV~df~~~i~~~Vva  191 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAV-AA-NHPEVHLMVLLIDERPEEVTDMRRSVKGEVYA  191 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHH-Hh-cCCCceEEEEEecCCCCCHHHHHHHHhhhEEe
Confidence            34457777765 344567999999999999999998875 22 22244 4787777754 688888888776654

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.79  E-value=0.0028  Score=57.28  Aligned_cols=51  Identities=14%  Similarity=0.199  Sum_probs=40.9

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD  195 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~  195 (243)
                      ..++|+++.++.+...+..+.  -+-+.|++|+|||+||+.+.... .....|.
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~-~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAF-QNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHh-cccCcce
Confidence            458999999999999887763  37789999999999999999975 3233454

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.79  E-value=0.0017  Score=59.78  Aligned_cols=46  Identities=30%  Similarity=0.382  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-+..++.|.+.+..+++ +.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987654 457789999999999999998865

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.79  E-value=0.0019  Score=52.61  Aligned_cols=71  Identities=20%  Similarity=0.231  Sum_probs=52.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      .++||-++.++.+.-...+.+.+-+-|.||+|+||||-+..+..... -...=+.+.-.+.|.+....-+-.
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL-G~~~ke~vLELNASdeRGIDvVRn   97 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL-GDSYKEAVLELNASDERGIDVVRN   97 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh-ChhhhhHhhhccCccccccHHHHH
Confidence            45899999999999988888899999999999999998888877651 111124556666776655444433

>PRK00625 shikimate kinase; Provisional

Probab=96.79  E-value=0.0012  Score=51.91  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.++||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998875

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.79  E-value=0.0035  Score=51.34  Aligned_cols=50  Identities=18%  Similarity=0.190  Sum_probs=37.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCC----CCEEEEEEecCcccHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN----FDFVIWEVVSRDLQLEKMQ  212 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~~~~i~  212 (243)
                      .-.++.|+|.+|+|||+|+.++.-.. .....    -..++|++-...++...+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            45799999999999999999997543 21221    3678999988877765543

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 .

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.79  E-value=0.0032  Score=51.44  Aligned_cols=43  Identities=19%  Similarity=0.240  Sum_probs=30.1

Q ss_pred             cccHHH-HHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQST-LDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~-~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.++. ...+.++... .....+-|+|..|+|||+||+.+++..
T Consensus        22 ~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         22 AGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            354433 3444444442 345678899999999999999999975

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.78  E-value=0.0072  Score=51.58  Aligned_cols=75  Identities=13%  Similarity=0.111  Sum_probs=43.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC--CCCEEEEEEecCcccHHHHHHHHHHHhcCCCHHHHHHHHHHHhhcCc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN--NFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTK  239 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~--~F~~~~wv~vs~~~~~~~i~~~I~~~l~~~~~~~~~~~l~~~L~~kr  239 (243)
                      --++|-++|++|.|||+|.+.++.+. .++.  .+....-+.++    -..++..=+..-| +....+-++|.+.+.++.
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEin----shsLFSKWFsESg-KlV~kmF~kI~ELv~d~~  249 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEIN----SHSLFSKWFSESG-KLVAKMFQKIQELVEDRG  249 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEe----hhHHHHHHHhhhh-hHHHHHHHHHHHHHhCCC
Confidence            36789999999999999999999997 6543  34333334332    1222222222111 223344455666666555


Q ss_pred             eEE
Q 038742          240 FVL  242 (243)
Q Consensus       240 ~Ll  242 (243)
                      .|+
T Consensus       250 ~lV  252 (423)
T KOG0744|consen  250 NLV  252 (423)
T ss_pred             cEE
Confidence            443

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

Probab=96.78  E-value=0.001  Score=52.85  Aligned_cols=23  Identities=39%  Similarity=0.627  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999975

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.78  E-value=0.001  Score=52.33  Aligned_cols=23  Identities=35%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ||.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998875

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.78  E-value=0.002  Score=57.37  Aligned_cols=46  Identities=22%  Similarity=0.252  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+...+.|.+++..+++. .+-++|+.|+||||+|..+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999887654 58899999999999999988876

>PRK10867 signal recognition particle protein; Provisional

Probab=96.77  E-value=0.017  Score=51.90  Aligned_cols=26  Identities=27%  Similarity=0.506  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|.+|+||||.+..+....
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999887777655

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

Probab=96.77  E-value=0.0013  Score=51.60  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+|+.|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999997764

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.77  E-value=0.0074  Score=56.70  Aligned_cols=46  Identities=26%  Similarity=0.333  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+.+..+++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999988765 446799999999999999998875

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.77  E-value=0.0048  Score=54.79  Aligned_cols=74  Identities=18%  Similarity=0.236  Sum_probs=48.2

Q ss_pred             CcccccHHHHHHHHHHhcCC--------------CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC---CEEEEEEecC
Q 038742          142 PAVVGFQSTLDRVWRCLTEE--------------PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF---DFVIWEVVSR  204 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F---~~~~wv~vs~  204 (243)
                      ..++|.++.++.+...+...              ..+-|-++|++|+||||||+.+....   ..+|   +..-+...+.
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l---~~~fi~vdat~~~e~g~   88 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEVGY   88 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh---CCeEEEeecceeecCCc
Confidence            45789988888887666531              24678899999999999999999976   4444   2221222211


Q ss_pred             -cccHHHHHHHHHHH
Q 038742          205 -DLQLEKMQESIAKK  218 (243)
Q Consensus       205 -~~~~~~i~~~I~~~  218 (243)
                       ..+...+++.+...
T Consensus        89 vG~dvE~i~r~l~e~  103 (441)
T TIGR00390        89 VGRDVESMVRDLTDA  103 (441)
T ss_pred             ccCCHHHHHHHHHHH
Confidence             22555666666544

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.

>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=96.75  E-value=0.0012  Score=49.78  Aligned_cols=23  Identities=26%  Similarity=0.572  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998865

>PRK08116 hypothetical protein; Validated

Probab=96.75  E-value=0.0068  Score=51.00  Aligned_cols=37  Identities=30%  Similarity=0.159  Sum_probs=27.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      ..+-++|..|+|||+||..+++.. .  .+-..+++++++
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l-~--~~~~~v~~~~~~  151 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL-I--EKGVPVIFVNFP  151 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEEHH
Confidence            357899999999999999999987 2  223345666643

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.75  E-value=0.002  Score=54.72  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|||.|..|+||||||+.+..-.
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            56799999999999999998876544

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.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.74  E-value=0.009  Score=46.57  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.++|++|+||||++..+....
T Consensus         1 ~~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           1 TVILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            378899999999999999998875

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.74  E-value=0.0098  Score=56.51  Aligned_cols=46  Identities=24%  Similarity=0.292  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+++..++ .+.+-++|..|+||||+|+.+.+..
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999998875 4455799999999999999888765

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

Probab=96.74  E-value=0.0012  Score=51.31  Aligned_cols=20  Identities=35%  Similarity=0.667  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~  184 (243)
                      .|+|.|.+|+||||++..+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PRK09087 hypothetical protein; Validated

Probab=96.74  E-value=0.016  Score=47.43  Aligned_cols=26  Identities=35%  Similarity=0.373  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.+.|||..|+|||+|++.++...
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc
Confidence            34678999999999999999988764

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.73  E-value=0.0081  Score=54.93  Aligned_cols=25  Identities=36%  Similarity=0.670  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|..|+||||++..+....
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999998888754

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.73  E-value=0.0025  Score=52.30  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|.|++|+||||+|+.+....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998876

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.71  E-value=0.0013  Score=51.56  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|+|+.|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998853

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.

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

Probab=96.71  E-value=0.0025  Score=50.32  Aligned_cols=36  Identities=28%  Similarity=0.403  Sum_probs=29.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      .++|.|+|+.|+|||||++.+....   .+.|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            4689999999999999999999976   67786555554

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 ....

>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=96.69  E-value=0.0013  Score=51.88  Aligned_cols=23  Identities=39%  Similarity=0.756  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|..|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999886

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

>CHL00181 cbbX CbbX; Provisional

Probab=96.69  E-value=0.003  Score=53.73  Aligned_cols=46  Identities=22%  Similarity=0.323  Sum_probs=31.9

Q ss_pred             CcccccHHHHHHHHHHh---cC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCL---TE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L---~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..+++|.++.   .-            .....+-++|.+|+||||+|+.++...
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34788776666554432   11            123347889999999999999998864

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

Probab=96.69  E-value=0.0019  Score=48.94  Aligned_cols=39  Identities=21%  Similarity=0.367  Sum_probs=27.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      ++|+|+|..|+|||||++.+.+.. . +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-K-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-H-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-h-HcCCceEEEEEccC
Confidence            489999999999999999999987 3 23455555555544

>PRK06217 hypothetical protein; Validated

Probab=96.68  E-value=0.0015  Score=51.62  Aligned_cols=36  Identities=22%  Similarity=0.361  Sum_probs=27.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCC--CEEEEEE
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNF--DFVIWEV  201 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F--~~~~wv~  201 (243)
                      ..|.|.|++|+||||||+.+.... .. .+|  |...|..
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l-~~-~~~~~D~~~~~~   39 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERL-DI-PHLDTDDYFWLP   39 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc-CC-cEEEcCceeecc
Confidence            358999999999999999999986 32 233  4566654

>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=96.68  E-value=0.0015  Score=47.29  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|+|..|+|||||.+.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999999876

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.68  E-value=0.0018  Score=50.29  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.++|++|+||||+|+.+....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999999976

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

Probab=96.67  E-value=0.0024  Score=56.73  Aligned_cols=46  Identities=22%  Similarity=0.270  Sum_probs=36.9

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.+..+++|.+.+.-             ...+-+-++|++|+|||+||+.+.+..
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            3478998888888776531             145678899999999999999999976

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.67  E-value=0.0026  Score=58.98  Aligned_cols=46  Identities=13%  Similarity=0.228  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.+.+.+..++ .+.+-++|+.|+||||+|+.+....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999997765 4468899999999999999998875

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.67  E-value=0.0025  Score=48.42  Aligned_cols=39  Identities=23%  Similarity=0.354  Sum_probs=28.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL  206 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~  206 (243)
                      ++.|.|.+|+||||++..+....   ...-..++++.....+
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcch
Confidence            46899999999999999998875   2233456666655443

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.67  E-value=0.0045  Score=50.46  Aligned_cols=46  Identities=26%  Similarity=0.247  Sum_probs=35.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKM  211 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i  211 (243)
                      .-.++-|+|.+|+|||+||.++....   ...-..++|++.. .+++..+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~---~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEA---AKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEECC-CCCHHHH
Confidence            46799999999999999999998875   2334667888877 5555443

>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=96.66  E-value=0.003  Score=47.36  Aligned_cols=42  Identities=33%  Similarity=0.310  Sum_probs=30.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      |-++|.+|+|||+||+.+....   ..+   ..-+.++...+..++.-
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~~---~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GRP---VIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TCE---EEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hcc---eEEEEecccccccccee
Confidence            5689999999999999999875   222   23356777777766654

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.

>PRK10536 hypothetical protein; Provisional

Probab=96.66  E-value=0.017  Score=48.07  Aligned_cols=43  Identities=12%  Similarity=0.182  Sum_probs=36.1

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.++......++.+|.+.  .++.+.|.+|+|||+||..+..+.
T Consensus        56 ~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~   98 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA   98 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH
Confidence            3567888888888888764  489999999999999999998863

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.65  E-value=0.0023  Score=51.62  Aligned_cols=31  Identities=23%  Similarity=0.403  Sum_probs=26.8

Q ss_pred             HhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          157 CLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       157 ~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+...++++|+++|..|+|||||.+++....
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444579999999999999999999998875

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

>PRK13975 thymidylate kinase; Provisional

Probab=96.65  E-value=0.0018  Score=51.52  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.|.|+.|+||||+++.+.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999987

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.65  E-value=0.0095  Score=58.33  Aligned_cols=68  Identities=21%  Similarity=0.230  Sum_probs=48.6

Q ss_pred             CcccccHHHHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC-cccHHHHHHHHHHHh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR-DLQLEKMQESIAKKI  219 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~I~~~l  219 (243)
                      +.++-|+.    |.+.|.. ...+++.|.|++|.|||||+.......       +.++|+++.. +.++..+...++..+
T Consensus        14 ~~~~~R~r----l~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~-------~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         14 HNTVVRER----LLAKLSGANNYRLVLVTSPAGYGKTTLISQWAAGK-------NNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             cccCcchH----HHHHHhcccCCCeEEEECCCCCCHHHHHHHHHHhC-------CCeEEEecCcccCCHHHHHHHHHHHH
Confidence            44566664    4444433 357899999999999999999977542       2589999964 446667777777766


Q ss_pred             c
Q 038742          220 A  220 (243)
Q Consensus       220 ~  220 (243)
                      +
T Consensus        83 ~   83 (903)
T PRK04841         83 Q   83 (903)
T ss_pred             H
Confidence            4

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.64  E-value=0.0019  Score=50.49  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|.|+|++|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999876

>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=96.63  E-value=0.0032  Score=51.92  Aligned_cols=35  Identities=26%  Similarity=0.386  Sum_probs=30.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      .++|+|..|+|||||+..+....   ...|.++.+++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            57899999999999999999876   778988777764

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

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.63  E-value=0.028  Score=49.45  Aligned_cols=38  Identities=32%  Similarity=0.354  Sum_probs=28.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      +.++++++|+.|+||||++..+.... ..+.  ..+.+++.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l-~~~g--~~V~lIta  242 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL-LKQN--RTVGFITT  242 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHcC--CeEEEEeC
Confidence            46799999999999999999998765 2222  23555554

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.63  E-value=0.0018  Score=48.78  Aligned_cols=23  Identities=43%  Similarity=0.758  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999999864

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.62  E-value=0.004  Score=57.48  Aligned_cols=45  Identities=20%  Similarity=0.209  Sum_probs=38.2

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.+..++.+...+......-+-|+|.+|+||||+|+.+++..
T Consensus        66 ~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999888776655566799999999999999998754

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.61  E-value=0.017  Score=51.52  Aligned_cols=25  Identities=36%  Similarity=0.464  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+++|..|+||||++..+....
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999887653

>PRK13947 shikimate kinase; Provisional

Probab=96.61  E-value=0.002  Score=50.11  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999875

>PRK14530 adenylate kinase; Provisional

Probab=96.61  E-value=0.0019  Score=52.37  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|+|++|+||||+|+.+....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.61  E-value=0.0023  Score=50.17  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+++|+|..|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            46799999999999999999999876

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.60  E-value=0.0019  Score=51.82  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|+.|+|||||++.+....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999999875

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.60  E-value=0.003  Score=59.07  Aligned_cols=46  Identities=22%  Similarity=0.247  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+...+.|.+++..++ .+.+-++|+.|+||||+|+.+.+..
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999998875 4577899999999999999998765

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.59  E-value=0.011  Score=47.14  Aligned_cols=24  Identities=21%  Similarity=0.505  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|.|..|+||||+++.+.+..
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999876

>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=96.58  E-value=0.0028  Score=49.50  Aligned_cols=44  Identities=23%  Similarity=0.263  Sum_probs=31.8

Q ss_pred             ccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.+..+.++++.+..  ....-|-|+|..|+||+.+|+.|++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            46777777777777754  222445599999999999999999965

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 ....

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.58  E-value=0.003  Score=55.00  Aligned_cols=46  Identities=22%  Similarity=0.290  Sum_probs=40.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.++.+..|+..+.+..+.-|-|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999988888877777799999999999999997765

>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=96.57  E-value=0.0063  Score=48.14  Aligned_cols=23  Identities=30%  Similarity=0.641  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999987

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

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

Probab=96.57  E-value=0.0018  Score=49.25  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47789999999999999998864

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

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

Probab=96.57  E-value=0.0029  Score=56.80  Aligned_cols=45  Identities=24%  Similarity=0.321  Sum_probs=36.2

Q ss_pred             cccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.+..+++|.+.+.-             ....-+.++|++|+|||+||+.+.+..
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            467899888888876631             134567899999999999999999976

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.57  E-value=0.0032  Score=57.31  Aligned_cols=45  Identities=27%  Similarity=0.281  Sum_probs=38.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+++|.+..++.|.+.+..+++. -+-++|+.|+||||+|+.+...
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            45899999999999988877655 7889999999999999988763

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

Probab=96.56  E-value=0.0033  Score=49.78  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998865

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

>TIGR02012 tigrfam_recA protein RecA

Probab=96.56  E-value=0.0095  Score=51.32  Aligned_cols=45  Identities=18%  Similarity=0.062  Sum_probs=34.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  209 (243)
                      .-+++-|.|++|+||||||.++....   ...=..++|+...+.+++.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~~   98 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV   98 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHHH
Confidence            46799999999999999999887765   2233556788777766653

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.

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

Probab=96.56  E-value=0.0092  Score=48.23  Aligned_cols=53  Identities=28%  Similarity=0.348  Sum_probs=31.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcc----cCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLH----TSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~----v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      +..|+|++|.||||++..+......    ....-...+-++...+..+..++..+.+
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            7889999999999766666554301    0133344555555555667777777766

>PRK13949 shikimate kinase; Provisional

Probab=96.56  E-value=0.0021  Score=50.22  Aligned_cols=23  Identities=35%  Similarity=0.384  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|++|+||||+++.+....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999875

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.55  E-value=0.0028  Score=49.70  Aligned_cols=24  Identities=21%  Similarity=0.421  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.+.|++|+||||+|+.+.+..
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998864

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

>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=96.55  E-value=0.0063  Score=50.47  Aligned_cols=60  Identities=17%  Similarity=0.187  Sum_probs=36.4

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHH
Q 038742          150 TLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEK  210 (243)
Q Consensus       150 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~  210 (243)
                      ...++++.|..  .+..+|+|.|+||.||+||...+-... ..+++=-.++=|--|.+++--.
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~tGGA   75 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPFTGGA   75 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGCC---
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCCCCCc
Confidence            45566666654  368899999999999999999999887 4443322233344455555433

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.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.54  E-value=0.022  Score=47.61  Aligned_cols=58  Identities=22%  Similarity=0.280  Sum_probs=40.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC---C-CCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS---N-NFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~---~-~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      .-.+.=|+|.+|+|||.|+-.+.=.. ...   . .=..++|+.-...|++..+. +|++..+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~   98 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGL   98 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS
T ss_pred             CCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHH-HHhhcccc
Confidence            35588899999999999998876543 211   1 12458999988889888765 46665543

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 ....

>cd01394 radB RadB

Probab=96.54  E-value=0.0075  Score=48.87  Aligned_cols=42  Identities=17%  Similarity=0.072  Sum_probs=31.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL  206 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~  206 (243)
                      .-+++.|.|.+|+|||||+.++....   ...=..++|+.....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~   59 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLS   59 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCC
Confidence            46789999999999999999998765   2222346677655444

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

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.54  E-value=0.015  Score=52.73  Aligned_cols=25  Identities=36%  Similarity=0.511  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.|++++|+.|+||||++..+....
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            4799999999999999999999876

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.54  E-value=0.0039  Score=56.95  Aligned_cols=45  Identities=27%  Similarity=0.398  Sum_probs=36.7

Q ss_pred             cccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.+..++++.+.+.-             ...+-+-++|++|+|||++|+.+++..
T Consensus       183 dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       183 DIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            467899988888887632             135568899999999999999999986

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.

>PRK13695 putative NTPase; Provisional

Probab=96.54  E-value=0.0037  Score=48.90  Aligned_cols=23  Identities=43%  Similarity=0.696  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|+|.+|+|||||++.+++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998875

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.53  E-value=0.0093  Score=51.44  Aligned_cols=45  Identities=20%  Similarity=0.068  Sum_probs=34.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  209 (243)
                      .-+++-|+|++|+||||||.++.-..   ...-..++|+...+.+++.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~   98 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV   98 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH
Confidence            46688899999999999999987765   2334567888887777753

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK05642 DNA replication initiation factor; Validated

Probab=96.53  E-value=0.027  Score=46.41  Aligned_cols=39  Identities=21%  Similarity=0.376  Sum_probs=28.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      ...+-|+|..|+|||+|++.+.+.. ..+.  ..+++++...
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~-~~~~--~~v~y~~~~~   83 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF-EQRG--EPAVYLPLAE   83 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-HhCC--CcEEEeeHHH
Confidence            3678999999999999999999875 2222  3456776543

>PRK12377 putative replication protein; Provisional

Probab=96.52  E-value=0.0057  Score=50.81  Aligned_cols=39  Identities=26%  Similarity=0.203  Sum_probs=30.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      +..-+.++|.+|+|||+||..+.+.. .  .....+++++++
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l-~--~~g~~v~~i~~~  138 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRL-L--AKGRSVIVVTVP  138 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCCeEEEEHH
Confidence            34678999999999999999999987 3  333345667664

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.01  Score=54.64  Aligned_cols=45  Identities=31%  Similarity=0.446  Sum_probs=37.3

Q ss_pred             cccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++-|.+..+.++.+++..            ...+=|-++|++|.|||.||+.+.++.
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel  247 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL  247 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc
Confidence            456889888888877753            156778899999999999999999987

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

Probab=96.51  E-value=0.0055  Score=49.95  Aligned_cols=23  Identities=35%  Similarity=0.632  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|.|-||+||||+|..+....
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l   24 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL   24 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH
Confidence            69999999999999999966665

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.50  E-value=0.0042  Score=47.87  Aligned_cols=35  Identities=17%  Similarity=0.362  Sum_probs=26.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      ||+|+|+.|+|||||+..+.... +.+ .+...+.-+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l-~~~-G~~V~viK~   35 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL-KAR-GYRVATIKH   35 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-Hhc-CCeEEEEec
Confidence            58999999999999999999986 322 344444443

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.

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

Probab=96.49  E-value=0.0022  Score=46.09  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |=|+|.+|+|||+||+.+..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            3489999999999999987765

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

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.49  E-value=0.016  Score=55.35  Aligned_cols=78  Identities=15%  Similarity=0.218  Sum_probs=46.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc--HHHHHHHHHHHhcC-----CCHHHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ--LEKMQESIAKKIAF-----SSFHEKAQEIFKTM  235 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~--~~~i~~~I~~~l~~-----~~~~~~~~~l~~~L  235 (243)
                      -.||+++|+.|+||||++..+.... .....-..+..++.. .+.  ..+-++...+.++.     .+..++...+. .+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~-~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~-~~  261 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC-VAREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVHAVKDAADLRFALA-AL  261 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH-HHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHH-Hh
Confidence            4699999999999999999998765 222112234444432 222  34445555555554     45555544443 45


Q ss_pred             hcCceEEC
Q 038742          236 RNTKFVLL  243 (243)
Q Consensus       236 ~~kr~Llv  243 (243)
                      +++.++||
T Consensus       262 ~~~D~VLI  269 (767)
T PRK14723        262 GDKHLVLI  269 (767)
T ss_pred             cCCCEEEE
Confidence            56666654

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

Probab=96.49  E-value=0.0027  Score=47.03  Aligned_cols=27  Identities=44%  Similarity=0.621  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcccCCCCC
Q 038742          166 VGLHGMGGVGKTTLLTQINNSFLHTSNNFD  195 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~~~v~~~F~  195 (243)
                      +-++|.+|+||||+|+.+....   ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCcee
Confidence            5689999999999999999976   56664

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.

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

Probab=96.48  E-value=0.0026  Score=48.36  Aligned_cols=22  Identities=36%  Similarity=0.493  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|++|.||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998765

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.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.47  E-value=0.0026  Score=49.68  Aligned_cols=22  Identities=41%  Similarity=0.618  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|.+|+|||||++.+.+..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6799999999999999999886

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.47  E-value=0.0047  Score=54.28  Aligned_cols=46  Identities=22%  Similarity=0.294  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+...+.+.+.+..+++ +.+-++|++|+||||+|+.+.+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999987654 478899999999999999997765

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.45  E-value=0.0055  Score=46.50  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+-|-|.|.+|+|||||+..+....
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3457899999999999999998643

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.45  E-value=0.005  Score=53.67  Aligned_cols=46  Identities=15%  Similarity=0.286  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.+.+++..++. +.+-++|++|+||||+|+.+....
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999987654 467899999999999999888764

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.44  E-value=0.0054  Score=53.28  Aligned_cols=45  Identities=22%  Similarity=0.265  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +.++|.+..+..++-.+.+....-+.|.|..|+|||||++.+..-
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~   48 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAAL   48 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHh
Confidence            457999999988877777766677789999999999999999743

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.

>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=96.44  E-value=0.0039  Score=47.98  Aligned_cols=25  Identities=32%  Similarity=0.478  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|=|.|..|.||||||+.+....
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L   26 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL   26 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578899999999999999999988

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 ....

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.43  E-value=0.0033  Score=50.35  Aligned_cols=27  Identities=19%  Similarity=0.396  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+|.|+|+.|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999998865

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.43  E-value=0.0027  Score=50.33  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.43  E-value=0.023  Score=50.30  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.++|+.|+||||.+..+....
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999998765

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.43  E-value=0.0045  Score=57.87  Aligned_cols=46  Identities=26%  Similarity=0.377  Sum_probs=39.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-+..++.|.+++..+++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999988765 567899999999999999996554

>PRK05439 pantothenate kinase; Provisional

Probab=96.43  E-value=0.027  Score=48.35  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-+|+|.|.+|+||||+|+.+....
T Consensus        85 ~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         85 VPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            57799999999999999999998855

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.43  E-value=0.028  Score=46.61  Aligned_cols=50  Identities=22%  Similarity=0.244  Sum_probs=33.5

Q ss_pred             HHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          150 TLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       150 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      .+..+.+...+  .+...+-++|.+|+|||+||..+.+.. ..  .-..++++++
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l-~~--~g~~v~~it~  135 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNEL-LL--RGKSVLIITV  135 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHH-Hh--cCCeEEEEEH
Confidence            44455554433  234578899999999999999999987 32  2234555554

>TIGR01287 nifH nitrogenase iron protein

Probab=96.43  E-value=0.0022  Score=54.00  Aligned_cols=24  Identities=29%  Similarity=0.573  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|+|+|-||+||||++..+....
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            479999999999999998888765

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.43  E-value=0.0024  Score=49.36  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|.|..|+|||||++.+...
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            899999999999999999874

>TIGR01351 adk adenylate kinases

Probab=96.43  E-value=0.0046  Score=49.98  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998765

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.

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

Probab=96.42  E-value=0.0088  Score=53.18  Aligned_cols=46  Identities=20%  Similarity=0.221  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhcCC--------------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEE--------------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.+..++...              ...-|-++|++|+||||||+.+....
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999988888777430              14678999999999999999998876

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.42  E-value=0.019  Score=49.37  Aligned_cols=58  Identities=16%  Similarity=0.204  Sum_probs=41.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      .-+++-|+|.+|+|||+|+..+.-.. ...    ..=..++|+.-..+|+++.+.+ ++++++.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~-~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTA-QLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHH-hcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            46788899999999999998876432 111    1124689999999999888754 5566544

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.41  E-value=0.0096  Score=50.55  Aligned_cols=45  Identities=22%  Similarity=0.392  Sum_probs=30.4

Q ss_pred             cccccHHHHHHHHHHhc---CC------------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT---EE------------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~---~~------------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.++.+++|.++..   ..            ...-+-++|++|+||||+|+.+....
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            46787766666544321   10            12257799999999999998777655

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.40  E-value=0.0048  Score=56.45  Aligned_cols=46  Identities=24%  Similarity=0.279  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..+..|.+.+..++ .+-+-++|+.|+||||+|+.+.+..
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            347999999999999887765 3578899999999999999999876

>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=96.39  E-value=0.0028  Score=47.22  Aligned_cols=25  Identities=36%  Similarity=0.525  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|+|||||.+.+....
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            3589999999999999999998865

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 ....

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

Probab=96.37  E-value=0.024  Score=47.29  Aligned_cols=39  Identities=28%  Similarity=0.291  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      +..-+.++|.+|+|||.||.++.++. - +..+ .+.+++++
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l-~-~~g~-sv~f~~~~  142 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNEL-L-KAGI-SVLFITAP  142 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHH-H-HcCC-eEEEEEHH
Confidence            56678999999999999999999997 3 3333 34556654

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

Probab=96.37  E-value=0.0032  Score=49.69  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|-|.|.+|.||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999975

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.37  E-value=0.0025  Score=49.16  Aligned_cols=22  Identities=27%  Similarity=0.546  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|+.|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998875

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.37  E-value=0.005  Score=57.68  Aligned_cols=46  Identities=20%  Similarity=0.224  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|-+..++.|.+.+..+++ +-+-++|+.|+||||+|+.+.+..
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999887765 458899999999999999888776

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.37  E-value=0.0052  Score=48.37  Aligned_cols=25  Identities=32%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.++.|.|+.|+|||||++.++++.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3578899999999999999999963

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

Probab=96.37  E-value=0.0057  Score=52.83  Aligned_cols=44  Identities=25%  Similarity=0.347  Sum_probs=36.9

Q ss_pred             ccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-|.++.+++|.+...-             +..+=|-.+|++|.|||-||++|.|+-
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            55889888888887643             267788999999999999999999975

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.37  E-value=0.0046  Score=57.80  Aligned_cols=46  Identities=26%  Similarity=0.371  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+++..+++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999988764 456899999999999999998876

>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=96.37  E-value=0.0032  Score=45.63  Aligned_cols=21  Identities=33%  Similarity=0.577  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|+|+.|+|||||.+.+.+.
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            789999999999999999984

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 ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.36  E-value=0.0065  Score=45.49  Aligned_cols=26  Identities=35%  Similarity=0.346  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+|.+.|.-|.|||||++.+....
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34589999999999999999999986

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.

>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=96.36  E-value=0.0051  Score=47.55  Aligned_cols=36  Identities=22%  Similarity=0.319  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+++|.+.|.+   +++.++|..|+|||||.+.+..+.
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            456677777765   789999999999999999999874

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.

>PRK06851 hypothetical protein; Provisional

Probab=96.34  E-value=0.1  Score=45.83  Aligned_cols=39  Identities=26%  Similarity=0.255  Sum_probs=30.4

Q ss_pred             cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.-.-.+.++    .+--+++.|.|.+|+|||||++.++...
T Consensus       200 ~G~~s~~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a  238 (367)
T PRK06851        200 KGAVDFVPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAA  238 (367)
T ss_pred             CcHHhhHHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHH
Confidence            45555555554    3446789999999999999999999986

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.34  E-value=0.035  Score=49.73  Aligned_cols=26  Identities=27%  Similarity=0.453  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|..|+||||++..+....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36899999999999999999998765

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.33  E-value=0.0046  Score=58.20  Aligned_cols=46  Identities=28%  Similarity=0.384  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+++..+++ +.+-++|..|+||||+|+.+....
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4589999999999999988764 468999999999999999987764

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.32  E-value=0.012  Score=46.69  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999987

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=96.32  E-value=0.0028  Score=51.14  Aligned_cols=24  Identities=42%  Similarity=0.487  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-|.|+|++|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            568999999999999999999875

>PRK09354 recA recombinase A; Provisional

Probab=96.31  E-value=0.016  Score=50.38  Aligned_cols=44  Identities=20%  Similarity=0.080  Sum_probs=35.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQL  208 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  208 (243)
                      .-+++-|+|++|+|||||+.++....   ...=..++|+...+.+++
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~  102 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDP  102 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHH
Confidence            46688899999999999999988765   333466789988887775

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.31  E-value=0.0044  Score=49.69  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998865

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.31  E-value=0.004  Score=48.75  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.|+|+.|.|||||++.+....
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHc
Confidence            469999999999999999999865

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.28  E-value=0.004  Score=50.04  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ..+|+++|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998877

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

Probab=96.28  E-value=0.0039  Score=48.16  Aligned_cols=46  Identities=28%  Similarity=0.364  Sum_probs=32.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      ..++.|+|.+|+||||+.+.+-...  +..+           -.|...+.-+++...+.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l--~~~~-----------ivNyG~~Mle~A~k~gl   49 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL--VKHK-----------IVNYGDLMLEIAKKKGL   49 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH--hhce-----------eeeHhHHHHHHHHHhCC
Confidence            5789999999999999998776643  1111           12556677777777666

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.28  E-value=0.0035  Score=47.81  Aligned_cols=23  Identities=39%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+++|.+|+|||||++.+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

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

>PRK04182 cytidylate kinase; Provisional

Probab=96.27  E-value=0.0042  Score=48.47  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999998875

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.27  E-value=0.0063  Score=56.14  Aligned_cols=46  Identities=26%  Similarity=0.373  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-+..++.|.+++..+++. .+-++|+.|+||||+|+.+....
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999887654 56899999999999999998765

>PLN02165 adenylate isopentenyltransferase

Probab=96.26  E-value=0.0062  Score=52.54  Aligned_cols=30  Identities=23%  Similarity=0.327  Sum_probs=25.6

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          158 LTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       158 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+..-.+|+|+|+.|+||||||..+....
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345556699999999999999999998875

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.25  E-value=0.0064  Score=56.58  Aligned_cols=46  Identities=22%  Similarity=0.280  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+++..+++. .+-++|+.|+||||+|+.+....
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999887654 57899999999999999998875

>PLN02924 thymidylate kinase

Probab=96.25  E-value=0.028  Score=45.91  Aligned_cols=53  Identities=15%  Similarity=0.271  Sum_probs=35.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      -..|+|-|..|+||||+++.+.+.. ... .+....+-..+......+..++++.
T Consensus        16 g~~IviEGiDGsGKsTq~~~L~~~l-~~~-g~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         16 GALIVLEGLDRSGKSTQCAKLVSFL-KGL-GVAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-Hhc-CCCceeeeCCCCCChHHHHHHHHHh
Confidence            4689999999999999999999998 433 3444333222222334555566554

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.25  E-value=0.0066  Score=51.21  Aligned_cols=60  Identities=18%  Similarity=0.272  Sum_probs=41.7

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHH
Q 038742          151 LDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKM  211 (243)
Q Consensus       151 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i  211 (243)
                      ..+|+..|..  .+..+|+|.|.||+||+||.-.+-... ....|=-.++=|--|.+++--.|
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsi   98 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSI   98 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCccc
Confidence            3456665654  468899999999999999999998887 55554334444555666654433

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

Probab=96.23  E-value=0.011  Score=43.76  Aligned_cols=46  Identities=17%  Similarity=0.299  Sum_probs=35.7

Q ss_pred             CcccccHHHHHHHHHHhcC-------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|..-..+.+++.+.+       ++.-|++..|..|+|||.+++.|.++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            4477877666666666643       367799999999999999988888874

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

>PLN02200 adenylate kinase family protein

Probab=96.23  E-value=0.0051  Score=50.69  Aligned_cols=26  Identities=31%  Similarity=0.253  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998865

>PRK06761 hypothetical protein; Provisional

Probab=96.22  E-value=0.0098  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.520  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|.|++|+||||+++.+.+..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999986

>PRK06620 hypothetical protein; Validated

Probab=96.22  E-value=0.0041  Score=50.57  Aligned_cols=46  Identities=15%  Similarity=0.027  Sum_probs=30.4

Q ss_pred             CcccccHH--HHHHHHHHhcC-C-Cc--eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQS--TLDRVWRCLTE-E-PV--GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~--~~~~l~~~L~~-~-~~--~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|-.+  ....+..+-.. + +.  +.+-|+|++|+|||+|++.+.+..
T Consensus        17 ~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         17 EFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             hhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhcc
Confidence            44567632  34444444332 1 12  668999999999999999988764

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

Probab=96.20  E-value=0.0042  Score=47.44  Aligned_cols=23  Identities=26%  Similarity=0.624  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998875

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

>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=96.20  E-value=0.0038  Score=50.49  Aligned_cols=24  Identities=25%  Similarity=0.562  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++-.+....
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            579999999999999888777665

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

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.19  E-value=0.0078  Score=48.22  Aligned_cols=24  Identities=33%  Similarity=0.508  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|+|+.|+||||++..+....
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999877665

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.

>PF13245 AAA_19: Part of AAA domain

Probab=96.19  E-value=0.015  Score=39.13  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=18.4

Q ss_pred             CceEEEEEcCCCCcHH-HHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKT-TLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKT-tLa~~v~~~~  187 (243)
                      +-++..|.|.+|.||| |+++.+..-.
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3567788999999999 5555554443

>PRK13946 shikimate kinase; Provisional

Probab=96.19  E-value=0.0051  Score=48.65  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|.++|+.|+||||+++.+.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3569999999999999999999975

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.18  E-value=0.018  Score=48.26  Aligned_cols=37  Identities=32%  Similarity=0.364  Sum_probs=26.6

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-++.+..++..+  .-+-+.|.+|+|||+||+.+....
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4445555555544  234589999999999999998754

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).

>cd01862 Rab7 Rab7 subfamily

Probab=96.18  E-value=0.0039  Score=48.01  Aligned_cols=22  Identities=45%  Similarity=0.554  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|+|+|.+|+|||||++.+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998776

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-

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.18  E-value=0.0084  Score=48.62  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998875

>PRK13948 shikimate kinase; Provisional

Probab=96.17  E-value=0.0055  Score=48.48  Aligned_cols=26  Identities=31%  Similarity=0.530  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.|.++||.|+||||+++.+.+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45788999999999999999999875

>PRK14529 adenylate kinase; Provisional

Probab=96.16  E-value=0.024  Score=46.31  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|++|+||||+++.+....
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~   24 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKY   24 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7889999999999999999877

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.16  E-value=0.0053  Score=47.52  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|.|+.|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999998764

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.16  E-value=0.02  Score=45.77  Aligned_cols=34  Identities=29%  Similarity=0.426  Sum_probs=26.8

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          154 VWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       154 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+..++-++..|.|.+|.||||++..+....
T Consensus         9 a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    9 AVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            3444444555788899999999999999998876

>cd04163 Era Era subfamily

Probab=96.16  E-value=0.0049  Score=46.71  Aligned_cols=24  Identities=38%  Similarity=0.580  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..+|+++|..|+|||||++.+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999998765

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.

>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=96.15  E-value=0.0054  Score=44.06  Aligned_cols=22  Identities=32%  Similarity=0.321  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      -..++|+|+.|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999999976

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

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.13  E-value=0.0072  Score=55.38  Aligned_cols=46  Identities=22%  Similarity=0.234  Sum_probs=33.5

Q ss_pred             CcccccHHHHHHHHHHh---cC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCL---TE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.++.++++.+++   ..         ...+-+-++|++|+|||+||+.+.+..
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            34778887666555443   22         123457899999999999999999875

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.

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.13  E-value=0.0051  Score=52.51  Aligned_cols=28  Identities=25%  Similarity=0.482  Sum_probs=23.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          160 EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       160 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.++|++.|-||+||||++-.+..-.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            4568999999999999999888776665

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=96.13  E-value=0.0043  Score=52.26  Aligned_cols=24  Identities=25%  Similarity=0.567  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|+|-||+||||++..+..-.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999988887765

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=96.13  E-value=0.0088  Score=53.10  Aligned_cols=46  Identities=11%  Similarity=0.168  Sum_probs=38.6

Q ss_pred             CcccccHHHHHHHHHHhcCCC----------ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP----------VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+.+..+.          .+-+-++|+.|+||||+|..+....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l   60 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAAL   60 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            458899999999999997753          4568899999999999999987654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.13  E-value=0.0077  Score=56.28  Aligned_cols=46  Identities=20%  Similarity=0.342  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+.+..+++. -+-++|+.|+||||+|+.+.+..
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            45899999999999999887644 68899999999999999998865

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.12  E-value=0.017  Score=49.87  Aligned_cols=56  Identities=16%  Similarity=0.256  Sum_probs=40.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC----CEEEEEEecCcccHHHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF----DFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F----~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      .-.++-|+|.+|+|||+|+.++.-.. .....+    ..++|+....+|++..+.+ +++.+
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~  160 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEAL  160 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHc
Confidence            46788899999999999999998764 211111    3689999988888877654 33443

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.12  E-value=0.011  Score=50.90  Aligned_cols=48  Identities=27%  Similarity=0.314  Sum_probs=31.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      .+++-+.|.|||||||+|....-.. ...+  .-+.-|+.....++..++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~l-A~~g--~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKL-AESG--KKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHH-HHcC--CcEEEEEeCCCCchHhhhc
Confidence            4789999999999999999855443 2122  3366666555555555443

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.12  E-value=0.0048  Score=47.23  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999997653

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

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

Probab=96.11  E-value=0.0049  Score=51.28  Aligned_cols=26  Identities=35%  Similarity=0.505  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|+|||||.+.++.-.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45789999999999999999999854

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.11  E-value=0.0077  Score=52.24  Aligned_cols=45  Identities=22%  Similarity=0.276  Sum_probs=36.3

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +.++|.+..++.+.-.+.+.+..-+-+.|.+|+||||||+.+..-
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~l   52 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAAL   52 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            457899999888876665544556889999999999999999654

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.11  E-value=0.0055  Score=48.21  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+|..|.|||||++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999999876

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.11  E-value=0.0048  Score=47.16  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+.+..
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988753

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.

>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=96.10  E-value=0.018  Score=49.53  Aligned_cols=73  Identities=16%  Similarity=0.315  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhhcccC--CCC---CEEEEEEecCcccHHHHHHHHHHHh
Q 038742          148 QSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSFLHTS--NNF---DFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       148 ~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~--~~F---~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      +...+.|.+.|.+   +...+|+|.|.=|+||||+.+.+.+.. +-.  ..+   ..-+|-.-+.+--...++.+|..++
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L-~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l   80 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL-KEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL   80 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH-hcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence            4456677777775   368899999999999999999999987 433  112   2335555554444566677777766


Q ss_pred             cC
Q 038742          220 AF  221 (243)
Q Consensus       220 ~~  221 (243)
                      ..
T Consensus        81 ~~   82 (325)
T PF07693_consen   81 EK   82 (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 [].

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

Probab=96.10  E-value=0.006  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.520  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|+|..|+|||||+..+....
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L   25 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRL   25 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999987

>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=96.10  E-value=0.005  Score=49.86  Aligned_cols=26  Identities=31%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998764

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.09  E-value=0.0046  Score=52.22  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|+|-||+||||++-.+....
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999988887765

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

Probab=96.09  E-value=0.0084  Score=49.13  Aligned_cols=26  Identities=27%  Similarity=0.334  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|+|||||++.+.--.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            45689999999999999999987543

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.09  E-value=0.01  Score=50.01  Aligned_cols=26  Identities=31%  Similarity=0.580  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.++|++|+||||++..+....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999888765

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.

>cd04155 Arl3 Arl3 subfamily

Probab=96.09  E-value=0.0046  Score=47.81  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|+|+|.+|+|||||.+.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            4556999999999999999999986

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.

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

Probab=96.09  E-value=0.0052  Score=49.51  Aligned_cols=26  Identities=35%  Similarity=0.427  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.08  E-value=0.019  Score=49.22  Aligned_cols=56  Identities=16%  Similarity=0.194  Sum_probs=40.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC----CCCEEEEEEecCcccHHHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN----NFDFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      .-+++-|+|.+|+|||||+.++.... ....    .=..++|+....+|++..+.+ +++.+
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~  153 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEAR  153 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHc
Confidence            46788999999999999999997764 2111    112689999988888877543 34443

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.

>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=96.08  E-value=0.0064  Score=47.03  Aligned_cols=24  Identities=38%  Similarity=0.702  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|+|..|+|||||+..+....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l   25 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPAL   25 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999986

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.

>PRK08356 hypothetical protein; Provisional

Probab=96.06  E-value=0.0057  Score=48.85  Aligned_cols=22  Identities=36%  Similarity=0.376  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      ..+|.|.|++|+||||+|+.+-
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999993

>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=96.06  E-value=0.012  Score=47.36  Aligned_cols=50  Identities=20%  Similarity=0.201  Sum_probs=34.4

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          149 STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       149 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      ..-...++.|.  +..++.+.|++|.|||.||-...-+. -..++|+..+++.
T Consensus         7 ~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~R   56 (205)
T PF02562_consen    7 EEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITR   56 (205)
T ss_dssp             HHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE
T ss_pred             HHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEe
Confidence            34445566665  45689999999999999999888775 3457888887775

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.06  E-value=0.032  Score=49.76  Aligned_cols=44  Identities=27%  Similarity=0.285  Sum_probs=30.1

Q ss_pred             ccccHHH--HHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQST--LDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~--~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.++.  ...+..+....  ....+-|+|..|+|||+|++.+++..
T Consensus       113 i~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l  160 (405)
T TIGR00362       113 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEI  160 (405)
T ss_pred             ccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4575543  22333333322  24568899999999999999999986

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).

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

Probab=96.06  E-value=0.0048  Score=51.62  Aligned_cols=24  Identities=25%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++..+....
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            578999999999999998887775

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.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.05  E-value=0.0055  Score=54.48  Aligned_cols=26  Identities=35%  Similarity=0.483  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+.|+|+|..|.|||||++.+....
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999999875

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.05  E-value=0.033  Score=50.33  Aligned_cols=57  Identities=26%  Similarity=0.262  Sum_probs=35.7

Q ss_pred             ccccHHH--HHHHHHHhcCC-CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC-EEEEEEe
Q 038742          144 VVGFQST--LDRVWRCLTEE-PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD-FVIWEVV  202 (243)
Q Consensus       144 ~vG~~~~--~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~-~~~wv~v  202 (243)
                      ++|-.+.  ...+....... ...-+-|+|..|+|||+|++.+.+.. . +.+.+ .++|++.
T Consensus       108 v~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l-~-~~~~~~~v~yi~~  168 (440)
T PRK14088        108 VVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYV-V-QNEPDLRVMYITS  168 (440)
T ss_pred             ccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHH-H-HhCCCCeEEEEEH
Confidence            4565433  23344444332 24468999999999999999999986 2 22233 3556654

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

Probab=96.05  E-value=0.005  Score=48.51  Aligned_cols=21  Identities=38%  Similarity=0.620  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +|+|.|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

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

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.05  E-value=0.0067  Score=48.18  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|+.|+|||||++.+....
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcC
Confidence            5689999999999999999998764

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.04  E-value=0.0057  Score=48.50  Aligned_cols=26  Identities=35%  Similarity=0.566  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998754

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.

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

Probab=96.04  E-value=0.0056  Score=49.57  Aligned_cols=26  Identities=35%  Similarity=0.314  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.04  E-value=0.0051  Score=45.98  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|+++|.+|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999998875

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.03  E-value=0.0059  Score=49.80  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--.++|+|+.|+|||||...+..-.
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34589999999999999999998653

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.03  E-value=0.0048  Score=46.44  Aligned_cols=21  Identities=38%  Similarity=0.571  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            789999999999999999886

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.

>cd00154 Rab Rab family

Probab=96.03  E-value=0.0056  Score=45.99  Aligned_cols=22  Identities=41%  Similarity=0.542  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999998774

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

>PLN02796 D-glycerate 3-kinase

Probab=96.03  E-value=0.0058  Score=52.95  Aligned_cols=26  Identities=35%  Similarity=0.549  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.-+|+|.|..|+|||||++.+....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            46789999999999999999999876

>PRK14532 adenylate kinase; Provisional

Probab=96.02  E-value=0.0059  Score=48.29  Aligned_cols=22  Identities=23%  Similarity=0.197  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.+.|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998765

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.01  E-value=0.057  Score=45.23  Aligned_cols=51  Identities=18%  Similarity=0.094  Sum_probs=34.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      -.++.|.|.+|+||||++.++..+. - ..+=..++|++...  +..++...+..
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~-~-~~~g~~vl~iS~E~--~~~~~~~r~~~   80 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDL-I-TQHGVRVGTISLEE--PVVRTARRLLG   80 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH-H-HhcCceEEEEEccc--CHHHHHHHHHH
Confidence            4578899999999999999987764 2 12114577887755  33445544443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

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

Probab=96.01  E-value=0.006  Score=41.99  Aligned_cols=23  Identities=39%  Similarity=0.730  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.+.|.+|+||||++..+....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999986

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.01  E-value=0.0054  Score=46.78  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+.+..
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998764

Rab GTPases are implicated in vesicle trafficking.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.00  E-value=0.025  Score=46.14  Aligned_cols=41  Identities=22%  Similarity=0.160  Sum_probs=30.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD  205 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~  205 (243)
                      .-.++.|.|.+|+|||||+..+..+. - + .-+.++|++...+
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~-~-~-~g~~~~~is~e~~   59 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKG-L-R-DGDPVIYVTTEES   59 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH-H-h-cCCeEEEEEccCC
Confidence            46789999999999999999876543 1 1 2346788876543

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.

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

Probab=96.00  E-value=0.0094  Score=53.23  Aligned_cols=47  Identities=19%  Similarity=0.176  Sum_probs=35.9

Q ss_pred             CCcccccHHHHHHHHHHhcC-------C---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE-------E---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..++|.+..++.+...+.+       .         .-+-+-++|++|+|||+||+.+....
T Consensus        70 ~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         70 DQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            34589999988887655421       0         23568899999999999999999865

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

Probab=96.00  E-value=0.0058  Score=48.19  Aligned_cols=39  Identities=28%  Similarity=0.267  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      +..-+.++|..|+|||.||..+.+.. -. ..+ .+.+++++
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~-~~-~g~-~v~f~~~~   84 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEA-IR-KGY-SVLFITAS   84 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHH-HH-TT---EEEEEHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHh-cc-CCc-ceeEeecC
Confidence            34569999999999999999999876 22 223 34666543

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.

>PRK13768 GTPase; Provisional

Probab=96.00  E-value=0.0076  Score=50.27  Aligned_cols=24  Identities=38%  Similarity=0.451  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+|.||+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578999999999999998888776

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=96.00  E-value=0.011  Score=50.86  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-..|.++|+.|+||||+++.+....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999998865

>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=96.00  E-value=0.0064  Score=47.77  Aligned_cols=26  Identities=42%  Similarity=0.433  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998653

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.

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=96.00  E-value=0.012  Score=49.75  Aligned_cols=64  Identities=14%  Similarity=0.104  Sum_probs=52.2

Q ss_pred             CCcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEE-EEEecCc
Q 038742          141 PPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVI-WEVVSRD  205 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~-wv~vs~~  205 (243)
                      -.+++|.+..+.-|.+.+........-.+|++|.|||+-|....... --.+.|.|++ -.|+|..
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSde   99 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDE   99 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhccccc
Confidence            34578999999999999998888999999999999999999888887 5556687754 3455544

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.99  E-value=0.0055  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.635  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.++|.+|+||||+|+.+....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999998875

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.99  E-value=0.0069  Score=48.86  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..+.|.|+|+.|+|||||++.+.+.
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5678999999999999999999764

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.99  E-value=0.011  Score=55.32  Aligned_cols=46  Identities=22%  Similarity=0.321  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+++..+.+ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999998887654 456799999999999999998775

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.99  E-value=0.017  Score=49.47  Aligned_cols=37  Identities=24%  Similarity=0.398  Sum_probs=28.4

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+++.+..  .+..+|+|+|.+|+|||||+..+....
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3344444432  368899999999999999999988865

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.99  E-value=0.0069  Score=47.11  Aligned_cols=24  Identities=29%  Similarity=0.337  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|+|+.|+||||+++.+.+..
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            358889999999999999999875

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

Probab=95.99  E-value=0.0073  Score=46.72  Aligned_cols=25  Identities=32%  Similarity=0.593  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|++|+|.-|+|||||...+-...
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L   26 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKL   26 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHH
Confidence            4799999999999999999997776

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.99  E-value=0.006  Score=46.30  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+.+..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999988753

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.

>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=95.98  E-value=0.0081  Score=47.20  Aligned_cols=43  Identities=23%  Similarity=0.212  Sum_probs=28.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      +-|.|.+|+|||+|+..+.... - +.. ..++|++...  +...+.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~-~-~~g-~~v~~~s~e~--~~~~~~~   44 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAG-L-ARG-EPGLYVTLEE--SPEELIE   44 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH-H-HCC-CcEEEEECCC--CHHHHHH
Confidence            6789999999999999886654 1 221 3466777654  3444433

A related protein is found in archaea.

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

Probab=95.98  E-value=0.0066  Score=48.98  Aligned_cols=36  Identities=28%  Similarity=0.141  Sum_probs=26.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      +-.|++|+|+.|+|||||.+.+..=.    ..=+..+|+.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE----~~~~G~I~i~   62 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE----EPDSGSITVD   62 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc----CCCCceEEEC
Confidence            45699999999999999999997643    1123456663

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=95.98  E-value=0.01  Score=46.22  Aligned_cols=34  Identities=26%  Similarity=0.322  Sum_probs=25.9

Q ss_pred             HHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          153 RVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       153 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+.+++...+...|.++|.+|+|||||...+...
T Consensus         5 ~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~   38 (174)
T cd04153           5 SLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLG   38 (174)
T ss_pred             HHHHHhcCCCccEEEEECCCCCCHHHHHHHHccC
Confidence            4555554444567889999999999999999754

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.97  E-value=0.014  Score=50.97  Aligned_cols=46  Identities=20%  Similarity=0.296  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|-+.....+...+..+++ +.+-|+|+.|+||||||..+....
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~L   69 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHI   69 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999988764 468899999999999999888876

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

Probab=95.97  E-value=0.029  Score=46.28  Aligned_cols=46  Identities=24%  Similarity=0.424  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHH----hcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRC----LTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~----L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.|..++.|++-    +...+..-+-+||..|+|||+|++.+.+..
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            5689999887777653    334466778889999999999999999987

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.97  E-value=0.0053  Score=45.91  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            47899999999999999987764

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.

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

Probab=95.97  E-value=0.0064  Score=46.00  Aligned_cols=24  Identities=38%  Similarity=0.401  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|-++|..|.|||||++.+....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999998875

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

>smart00072 GuKc Guanylate kinase homologues

Probab=95.95  E-value=0.009  Score=47.23  Aligned_cols=25  Identities=36%  Similarity=0.481  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|.|+|+.|+|||||++.+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4679999999999999999998874

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.

>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=95.95  E-value=0.0064  Score=49.92  Aligned_cols=26  Identities=35%  Similarity=0.440  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.95  E-value=0.0059  Score=51.38  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++..+....
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            689999999999999998766654

>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=95.95  E-value=0.0066  Score=47.78  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|+.|.|||||.+.+..+
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~   44 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYA   44 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhc
Confidence            3468999999999999999999643

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.

>cd04113 Rab4 Rab4 subfamily

Probab=95.95  E-value=0.0062  Score=46.47  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999987654

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

>cd00876 Ras Ras family

Probab=95.95  E-value=0.0062  Score=46.12  Aligned_cols=21  Identities=38%  Similarity=0.604  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.|+|++|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998754

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

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.94  E-value=0.0067  Score=48.86  Aligned_cols=26  Identities=38%  Similarity=0.451  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998754

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.94  E-value=0.0066  Score=49.24  Aligned_cols=26  Identities=38%  Similarity=0.552  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999999754

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.

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

Probab=95.94  E-value=0.0065  Score=49.97  Aligned_cols=26  Identities=35%  Similarity=0.391  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +--.++|+|+.|+|||||.+.|.-=.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999997643

>cd01898 Obg Obg subfamily

Probab=95.93  E-value=0.006  Score=46.92  Aligned_cols=21  Identities=52%  Similarity=0.844  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|+|.+|+|||||.+.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999854

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=95.93  E-value=0.013  Score=53.03  Aligned_cols=46  Identities=20%  Similarity=0.283  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+.+..+.+ +.+-++|+.|+||||+|+.+.+..
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987765 567889999999999999998765

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.92  E-value=0.0065  Score=45.66  Aligned_cols=43  Identities=26%  Similarity=0.338  Sum_probs=31.3

Q ss_pred             cccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|....++++.+.+..  ..-.-|-|.|..|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            4556666666666654  334567899999999999999999986

>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=95.92  E-value=0.0068  Score=49.22  Aligned_cols=26  Identities=38%  Similarity=0.402  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

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.

>PRK01184 hypothetical protein; Provisional

Probab=95.92  E-value=0.0068  Score=47.76  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+|+|+|++|+||||+++ +...
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~   23 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IARE   23 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHH
Confidence            489999999999999987 4443

>PTZ00035 Rad51 protein; Provisional

Probab=95.91  E-value=0.056  Score=47.03  Aligned_cols=58  Identities=19%  Similarity=0.213  Sum_probs=39.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      .-.++-|+|.+|+|||||+..+.-.. ...    ..=..++|+.-...|+++.+ ..++++++.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            46789999999999999999887544 211    01134678888777777764 344555443

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=95.91  E-value=0.013  Score=46.23  Aligned_cols=36  Identities=25%  Similarity=0.333  Sum_probs=27.8

Q ss_pred             HHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          151 LDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       151 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...++.++.. .+...|.|+|.+|+|||||++.+...
T Consensus         4 ~~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        4 FYDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            4456665532 45567889999999999999998875

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.91  E-value=0.0069  Score=48.90  Aligned_cols=26  Identities=35%  Similarity=0.438  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.91  E-value=0.0068  Score=49.97  Aligned_cols=26  Identities=42%  Similarity=0.585  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998653

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.

>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=95.91  E-value=0.0074  Score=48.80  Aligned_cols=26  Identities=35%  Similarity=0.543  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+ .+++|+|..|.|||||++.+..-.
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            36 899999999999999999998764

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.

>PRK14531 adenylate kinase; Provisional

Probab=95.91  E-value=0.0082  Score=47.40  Aligned_cols=24  Identities=21%  Similarity=0.218  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.|.|++|+||||+++.+....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.91  E-value=0.0091  Score=57.37  Aligned_cols=45  Identities=27%  Similarity=0.339  Sum_probs=36.2

Q ss_pred             cccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.+..++.+.+++..             ...+-|-++|++|+||||||+.+.+..
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            467999888888776632             134568899999999999999999976

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.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.91  E-value=0.017  Score=49.62  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++-+.|-||+||||+|-...-..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~   25 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALAL   25 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHH
Confidence            578899999999999997666554

...

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.90  E-value=0.0072  Score=48.16  Aligned_cols=26  Identities=35%  Similarity=0.602  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998864

>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=95.90  E-value=0.031  Score=45.57  Aligned_cols=25  Identities=40%  Similarity=0.445  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+-|+|..|+|||.|.+.+++..
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~   58 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEA   58 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHH
Confidence            4567899999999999999999986

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.89  E-value=0.0073  Score=48.77  Aligned_cols=26  Identities=42%  Similarity=0.503  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998753

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.89  E-value=0.064  Score=46.26  Aligned_cols=57  Identities=16%  Similarity=0.179  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .-.++-|.|.+|+|||||+..+.-.. ...    ..-..++|+.-...|++..+ ..+++.++
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~-~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~  155 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTC-QLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYG  155 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHH-hhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcC
Confidence            57799999999999999999887543 111    11235789988887887764 33445443

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).

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.89  E-value=0.0063  Score=51.25  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++-.+....
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            589999999999999888877754

>PHA02244 ATPase-like protein

Probab=95.88  E-value=0.021  Score=50.01  Aligned_cols=36  Identities=22%  Similarity=0.341  Sum_probs=26.3

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          150 TLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       150 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+..++..+ . -|-++|++|+|||+||+.+....
T Consensus       108 ~~~ri~r~l~~~-~-PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244        108 ETADIAKIVNAN-I-PVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             HHHHHHHHHhcC-C-CEEEECCCCCCHHHHHHHHHHHh
Confidence            344555555443 2 35679999999999999999876

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.88  E-value=0.027  Score=48.82  Aligned_cols=36  Identities=22%  Similarity=0.430  Sum_probs=28.9

Q ss_pred             HHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          152 DRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       152 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+++.+..  .+..+|+|.|.+|+|||||+..+....
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555542  468899999999999999999988876

>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=95.88  E-value=0.017  Score=46.44  Aligned_cols=43  Identities=21%  Similarity=0.194  Sum_probs=32.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ++++|.+..+..+.-.....  .-+-++|.+|+|||+||+.+-.=
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHh
Confidence            45788888777776666553  57889999999999999998764

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=95.88  E-value=0.022  Score=48.89  Aligned_cols=55  Identities=25%  Similarity=0.183  Sum_probs=36.4

Q ss_pred             ccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          146 GFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       146 G~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      ++........+++..    ....-+-++|..|+|||+||..+.+.. - ...+. +.+++++
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l-~-~~g~~-v~~~~~~  193 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANEL-A-KKGVS-STLLHFP  193 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHH-H-HcCCC-EEEEEHH
Confidence            344444445555542    134578899999999999999999987 2 22333 4566654

>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=95.88  E-value=0.0072  Score=47.61  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45689999999999999999998754

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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.88  E-value=0.0074  Score=49.28  Aligned_cols=26  Identities=31%  Similarity=0.350  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45699999999999999999998764

>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=95.88  E-value=0.0069  Score=46.17  Aligned_cols=20  Identities=25%  Similarity=0.456  Sum_probs=18.8

Q ss_pred             EEcCCCCcHHHHHHHHHhhh
Q 038742          168 LHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       168 I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |+|++|+||||+|+.+..+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999986

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 ....

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.88  E-value=0.0072  Score=49.72  Aligned_cols=26  Identities=42%  Similarity=0.586  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998653

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.

>PRK06921 hypothetical protein; Provisional

Probab=95.87  E-value=0.049  Score=45.78  Aligned_cols=39  Identities=28%  Similarity=0.258  Sum_probs=29.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCC-CCEEEEEEec
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN-FDFVIWEVVS  203 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~-F~~~~wv~vs  203 (243)
                      ...-+-++|..|+|||+||..+.+..   ..+ -..+++++..
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l---~~~~g~~v~y~~~~  155 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL---MRKKGVPVLYFPFV  155 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH---hhhcCceEEEEEHH
Confidence            35678999999999999999999976   222 3445666654

>cd01864 Rab19 Rab19 subfamily

Probab=95.87  E-value=0.007  Score=46.49  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..-|.|+|.+|+|||||+..+...
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhC
Confidence            356899999999999999998654

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.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=95.86  E-value=0.0073  Score=50.52  Aligned_cols=24  Identities=25%  Similarity=0.654  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++.++....
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~L   26 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAY   26 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            689999999999999999988876

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.86  E-value=0.03  Score=46.04  Aligned_cols=49  Identities=16%  Similarity=0.246  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .-.++.|.|.+|+|||||+.++.... - +.. ..+++++.  .-++.++.+.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~-~-~~g-~~~~yi~~--e~~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGF-L-QNG-YSVSYVST--QLTTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-H-hCC-CcEEEEeC--CCCHHHHHHHH
Confidence            35699999999999999975544433 1 222 23455553  33455666665

>cd01878 HflX HflX subfamily

Probab=95.86  E-value=0.013  Score=46.75  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+|+|.+|+|||||.+.+.+..
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcch
Confidence            35689999999999999999998864

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.

>PRK13976 thymidylate kinase; Provisional

Probab=95.85  E-value=0.049  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|=|..|+||||+++.+++..
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~~L   24 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAEYL   24 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999999998

>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=95.85  E-value=0.0077  Score=48.60  Aligned_cols=26  Identities=38%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998864

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.85  E-value=0.0068  Score=48.86  Aligned_cols=23  Identities=39%  Similarity=0.574  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|+|..|.|||||++.+..-.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            89999999999999999998753

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.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=95.85  E-value=0.007  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|-|..|+||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999864

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.85  E-value=0.013  Score=53.73  Aligned_cols=53  Identities=26%  Similarity=0.423  Sum_probs=40.8

Q ss_pred             ccccHHHHHHHHHHhcCC-----CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEE
Q 038742          144 VVGFQSTLDRVWRCLTEE-----PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEV  201 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~  201 (243)
                      +.--..-++++..||.+.     ..+++-+.|++|+||||.++.+.+..     -|+.+-|.+
T Consensus        21 LavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   21 LAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             hhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            444455677777777642     36789999999999999999999876     577777875

>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=95.85  E-value=0.0078  Score=49.12  Aligned_cols=25  Identities=40%  Similarity=0.502  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-.+++|+|..|.|||||++.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999999875

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).

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.84  E-value=0.0074  Score=48.74  Aligned_cols=26  Identities=35%  Similarity=0.538  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45689999999999999999998764

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.

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

Probab=95.84  E-value=0.14  Score=45.33  Aligned_cols=55  Identities=25%  Similarity=0.337  Sum_probs=34.2

Q ss_pred             cHHHHHHHHHHhcCC----CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          147 FQSTLDRVWRCLTEE----PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      ..+....+..++.++    +-++|++||+.|+||||-...+.... .....=.-++.++.
T Consensus       183 ~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITt  241 (407)
T COG1419         183 FSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITT  241 (407)
T ss_pred             HHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEe
Confidence            344555555555555    58899999999999987655555554 21122234556654

>TIGR00017 cmk cytidylate kinase

Probab=95.84  E-value=0.0089  Score=48.70  Aligned_cols=24  Identities=25%  Similarity=0.538  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|.|+.|+||||+++.+..+.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~   26 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKL   26 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999765

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.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=95.83  E-value=0.0071  Score=50.70  Aligned_cols=23  Identities=35%  Similarity=0.719  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|++.|-||+||||++-.+....
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            68899999999999887766644

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.

>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=95.83  E-value=0.008  Score=48.81  Aligned_cols=26  Identities=35%  Similarity=0.491  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998753

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=95.83  E-value=0.035  Score=50.14  Aligned_cols=25  Identities=28%  Similarity=0.398  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-+-|+|..|+|||+|++.+.+..
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l  165 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHAL  165 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999999986

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.83  E-value=0.0079  Score=48.28  Aligned_cols=26  Identities=35%  Similarity=0.480  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998854

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.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.82  E-value=0.0089  Score=50.90  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|-++|.+|+||||+|+.+..+.
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578889999999999999998764

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

Probab=95.82  E-value=0.017  Score=50.85  Aligned_cols=25  Identities=32%  Similarity=0.449  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|+|..|+|||||+..+....
T Consensus         5 ~~~i~i~G~~gsGKTTl~~~l~~~l   29 (369)
T PRK14490          5 PFEIAFCGYSGSGKTTLITALVRRL   29 (369)
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999987

>COG3899 Predicted ATPase [General function prediction only]

Probab=95.82  E-value=0.035  Score=54.17  Aligned_cols=44  Identities=18%  Similarity=0.412  Sum_probs=39.5

Q ss_pred             ccccHHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++||+.+.+.|...+..   ..-.++.+.|..|||||+|++.|....
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i   48 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPI   48 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHH
Confidence            68999999999998865   456799999999999999999999976

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.82  E-value=0.0079  Score=49.54  Aligned_cols=26  Identities=42%  Similarity=0.442  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

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.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=95.82  E-value=0.019  Score=51.01  Aligned_cols=71  Identities=14%  Similarity=0.223  Sum_probs=50.4

Q ss_pred             cHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHH-HHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          147 FQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLL-TQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      |.+..++|..||.+..-..|.|.|+.|+||+.|+ .++..+. +..-..||.--+   +.-+-..+....+.++|-
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r-~~vL~IDC~~i~---~ar~D~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR-KNVLVIDCDQIV---KARGDAAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC-CCEEEEEChHhh---hccChHHHHHHHHHhcCC
Confidence            4567899999999998899999999999999999 6666654 221122332222   223456677777777765

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.82  E-value=0.014  Score=46.18  Aligned_cols=38  Identities=24%  Similarity=0.159  Sum_probs=27.7

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+...++.+.... -..+.|+|..|.|||||++.+....
T Consensus        12 ~~~~~~l~~~v~~-g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          12 PLQAAYLWLAVEA-RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHHHhC-CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3444444444443 4689999999999999999988654

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.81  E-value=0.0081  Score=48.75  Aligned_cols=26  Identities=35%  Similarity=0.413  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998753

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=95.81  E-value=0.0077  Score=45.97  Aligned_cols=23  Identities=30%  Similarity=0.762  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999998875

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.81  E-value=0.048  Score=44.91  Aligned_cols=49  Identities=16%  Similarity=0.112  Sum_probs=34.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .-+++-|.|.+|+|||+||.++....   -..=+.++|++...  ++..+.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeC--CHHHHHHHH
Confidence            56799999999999999998865542   12235678888765  455555543

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.

>PRK09183 transposase/IS protein; Provisional

Probab=95.81  E-value=0.0084  Score=50.20  Aligned_cols=25  Identities=32%  Similarity=0.327  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -..+.|+|++|+|||+||..+.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3467799999999999999998764

>PRK02496 adk adenylate kinase; Provisional

Probab=95.81  E-value=0.0086  Score=47.20  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.81  E-value=0.0099  Score=51.27  Aligned_cols=26  Identities=27%  Similarity=0.491  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+++|++|+||||++..+....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998876

>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=95.81  E-value=0.016  Score=50.21  Aligned_cols=46  Identities=24%  Similarity=0.366  Sum_probs=41.1

Q ss_pred             CcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++++++.+.+      ..-+|+-++|+.|.||||||..+-+-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999865      367899999999999999999998876

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

>PRK14974 cell division protein FtsY; Provisional

Probab=95.81  E-value=0.018  Score=49.93  Aligned_cols=26  Identities=23%  Similarity=0.411  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|++|+||||++..+....
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l  164 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL  164 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46899999999999999888888765

>cd04136 Rap_like Rap-like subfamily

Probab=95.81  E-value=0.0079  Score=45.86  Aligned_cols=22  Identities=41%  Similarity=0.560  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .|.|+|.+|+|||||+..+.+.
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5789999999999999887754

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=95.80  E-value=0.0071  Score=45.95  Aligned_cols=19  Identities=26%  Similarity=0.651  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~  184 (243)
                      |+++|..|+|||||.+.+.
T Consensus         2 i~l~G~~g~GKTtL~~~l~   20 (170)
T cd01876           2 IAFAGRSNVGKSSLINALT   20 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHh
Confidence            7899999999999999999

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.80  E-value=0.0082  Score=49.33  Aligned_cols=26  Identities=35%  Similarity=0.617  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999998653

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.

>cd04124 RabL2 RabL2 subfamily

Probab=95.80  E-value=0.008  Score=46.13  Aligned_cols=21  Identities=29%  Similarity=0.374  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.++|.+|+|||||++.+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887664

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

>PRK14528 adenylate kinase; Provisional

Probab=95.79  E-value=0.01  Score=47.13  Aligned_cols=24  Identities=21%  Similarity=0.210  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999998765

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.79  E-value=1.3  Score=39.63  Aligned_cols=55  Identities=16%  Similarity=0.241  Sum_probs=37.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      +-.++.|-|.+|+||||+|..+..+. -.... ..++|++.  +.+...+...++....
T Consensus       193 ~g~liviag~pg~GKT~~al~ia~~~-a~~~g-~~v~~fSl--Em~~~~l~~Rl~~~~~  247 (421)
T TIGR03600       193 KGDLIVIGARPSMGKTTLALNIAENV-ALREG-KPVLFFSL--EMSAEQLGERLLASKS  247 (421)
T ss_pred             CCceEEEEeCCCCCHHHHHHHHHHHH-HHhCC-CcEEEEEC--CCCHHHHHHHHHHHHc
Confidence            34578889999999999999998665 32222 23556553  4566777777665543

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=95.78  E-value=0.013  Score=56.62  Aligned_cols=46  Identities=20%  Similarity=0.279  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+++..+++. .+-++|..|+||||+|+.+.+..
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999887654 57899999999999999998876

>cd04171 SelB SelB subfamily

Probab=95.78  E-value=0.0082  Score=45.69  Aligned_cols=21  Identities=38%  Similarity=0.567  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +|+|+|.+|+|||||.+.+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            799999999999999999874

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.78  E-value=0.0085  Score=45.96  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.++|..|+|||||.+.+...
T Consensus         2 i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhh
Confidence            789999999999999998653

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.77  E-value=0.015  Score=53.01  Aligned_cols=46  Identities=20%  Similarity=0.242  Sum_probs=39.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+.....|.+++..+.+ +.+-++|+.|+||||+|+.+....
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999987654 456789999999999999988764

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.77  E-value=0.0089  Score=47.94  Aligned_cols=25  Identities=32%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999998754

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.77  E-value=0.0088  Score=48.84  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45689999999999999999998754

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.76  E-value=0.024  Score=55.35  Aligned_cols=47  Identities=28%  Similarity=0.441  Sum_probs=37.7

Q ss_pred             CCcccccHHHHHHHHHHhcC--------C-CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE--------E-PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++|.+..++.+...+..        + +..++.++|+.|+|||+||+.+.+..
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999988888887753        1 23578899999999999999999875

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.76  E-value=0.039  Score=51.21  Aligned_cols=51  Identities=25%  Similarity=0.249  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD  195 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~  195 (243)
                      +++-|.++-+.+|-+...-             +..+-|-.+|++|.||||+|+.+.|..   +..|=
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nFl  497 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNFL  497 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCee
Confidence            4555677766666655432             257788999999999999999999976   66663

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.76  E-value=0.0088  Score=48.03  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

>cd00879 Sar1 Sar1 subfamily

Probab=95.76  E-value=0.0078  Score=47.42  Aligned_cols=25  Identities=28%  Similarity=0.434  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|+|+|.+|+|||||++.+.+.
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456699999999999999999874

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.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.76  E-value=0.0085  Score=48.81  Aligned_cols=26  Identities=35%  Similarity=0.427  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

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.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.75  E-value=0.0075  Score=50.88  Aligned_cols=23  Identities=39%  Similarity=0.804  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|..|+|||||++.+..-.
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll   23 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLF   23 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999998764

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.75  E-value=0.02  Score=50.40  Aligned_cols=46  Identities=17%  Similarity=0.235  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-+...+.|.+.+..+++. -+-++|+.|+||||||..+....
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999887644 68899999999999998877765

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.75  E-value=0.0089  Score=49.02  Aligned_cols=26  Identities=27%  Similarity=0.372  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998754

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.74  E-value=0.013  Score=55.02  Aligned_cols=46  Identities=20%  Similarity=0.356  Sum_probs=39.0

Q ss_pred             CcccccHHHHHHHHHHhcCC-----CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEE-----PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|-+..++++..+|...     .-.++.++|++|+||||+++.+....
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999998753     34579999999999999999999865

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

>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=95.74  E-value=0.0089  Score=48.96  Aligned_cols=26  Identities=38%  Similarity=0.498  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=95.74  E-value=0.0079  Score=45.75  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |+|+|.+|+|||||.+.+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998763

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

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.74  E-value=0.0089  Score=49.63  Aligned_cols=25  Identities=28%  Similarity=0.651  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|+|||||++.+....
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999998864

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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.74  E-value=0.009  Score=48.44  Aligned_cols=26  Identities=27%  Similarity=0.217  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||.+.+..-.
T Consensus        12 ~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         12 YHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999999754

>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=95.74  E-value=0.0092  Score=48.44  Aligned_cols=26  Identities=46%  Similarity=0.544  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999998653

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.

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

Probab=95.74  E-value=0.016  Score=50.68  Aligned_cols=27  Identities=22%  Similarity=0.267  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .....++|||++|.|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            357899999999999999999999986

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

Probab=95.73  E-value=0.037  Score=47.94  Aligned_cols=62  Identities=26%  Similarity=0.289  Sum_probs=44.0

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHH
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQ  212 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~  212 (243)
                      .++|.++....+...+..+.  -+-+.|.+|+|||+||+.+....   ...|   .++..+....+.++.
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l---~~~~---~~i~~t~~l~p~d~~   86 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARAL---GLPF---VRIQCTPDLLPSDLL   86 (329)
T ss_pred             eeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecCCCCCHHHhc
Confidence            37888877777766666553  36788999999999999999976   3333   455555555555543

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.73  E-value=0.062  Score=47.38  Aligned_cols=40  Identities=25%  Similarity=0.381  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      .-.++.|.|.+|+|||||+..+....   ...-..++|++...
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~---a~~g~~VlYvs~EE  120 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARL---AKRGGKVLYVSGEE  120 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCc
Confidence            45699999999999999999998765   22224566776543

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>cd04123 Rab21 Rab21 subfamily

Probab=95.73  E-value=0.0088  Score=45.35  Aligned_cols=23  Identities=39%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999888764

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

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

Probab=95.73  E-value=0.029  Score=47.31  Aligned_cols=49  Identities=20%  Similarity=0.139  Sum_probs=40.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      .-+++=|+|+.|+||||||-+++-..   +..-..++|+.-.+.+++..+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHH
Confidence            45688899999999999999988866   55555889999999999876543

>PRK06526 transposase; Provisional

Probab=95.72  E-value=0.0089  Score=49.90  Aligned_cols=26  Identities=27%  Similarity=0.176  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-+-++|++|+|||+||..+.+..
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            34568999999999999999998875

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.71  E-value=0.0091  Score=49.78  Aligned_cols=26  Identities=35%  Similarity=0.409  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.71  E-value=0.0096  Score=48.05  Aligned_cols=26  Identities=38%  Similarity=0.309  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999999764

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.71  E-value=0.036  Score=45.44  Aligned_cols=48  Identities=15%  Similarity=0.057  Sum_probs=33.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQES  214 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~  214 (243)
                      .-+++.|+|.+|+|||||+.++....  .+. =..++|++..++  +.++.+.
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~--~~~-g~~~~y~~~e~~--~~~~~~~   71 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGA--LKQ-GKKVYVITTENT--SKSYLKQ   71 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH--HhC-CCEEEEEEcCCC--HHHHHHH
Confidence            46799999999999999999985442  122 245778887654  3455554

>cd01858 NGP_1 NGP-1

Probab=95.71  E-value=0.02  Score=43.88  Aligned_cols=42  Identities=19%  Similarity=0.297  Sum_probs=29.1

Q ss_pred             ccHHHHHHHHHHhc---CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          146 GFQSTLDRVWRCLT---EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       146 G~~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.+.-++.+.+.+.   ......|+++|++|+||+||.+.+..+.
T Consensus        82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858          82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcCC
Confidence            44444555544432   1234568899999999999999998864

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.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=95.70  E-value=0.0084  Score=51.22  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|+|-||+||||+|..+....
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~L   24 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMM   24 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999988865

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.

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

Probab=95.70  E-value=0.016  Score=48.23  Aligned_cols=46  Identities=22%  Similarity=0.281  Sum_probs=36.3

Q ss_pred             CcccccHHHHHH---HHHHhcCC------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDR---VWRCLTEE------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++....   |++.|.+.      ..+-|-.+|++|.|||.+|+.+.|..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            347888766543   66677653      47789999999999999999999976

>cd04177 RSR1 RSR1 subgroup

Probab=95.70  E-value=0.0091  Score=46.09  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||.+.+.+..
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999987654

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

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.70  E-value=0.054  Score=45.40  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|-.|+||||+++.+....
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l   23 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF   23 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998865

PRK 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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=95.70  E-value=0.067  Score=42.27  Aligned_cols=35  Identities=23%  Similarity=0.318  Sum_probs=28.7

Q ss_pred             HHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          153 RVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       153 ~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.+.+..+++ ..+-++|+.|+||||+|..+.+..
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l   38 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKAL   38 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46666666665 678899999999999999998875

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=95.70  E-value=0.0096  Score=48.80  Aligned_cols=25  Identities=36%  Similarity=0.482  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998764

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=95.69  E-value=0.041  Score=49.85  Aligned_cols=44  Identities=27%  Similarity=0.275  Sum_probs=30.5

Q ss_pred             ccccHH--HHHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQS--TLDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~--~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|..+  ....+..+....  ...-+-|+|..|+|||+|++.+.+..
T Consensus       125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            456443  334444444332  34568899999999999999999987

>cd00157 Rho Rho (Ras homology) family

Probab=95.69  E-value=0.0092  Score=45.87  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999998764

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

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=95.69  E-value=0.0093  Score=48.84  Aligned_cols=26  Identities=23%  Similarity=0.258  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|.|..|.|||||++.+..-.
T Consensus        11 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770        11 RGEVLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999999865

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.

>PLN02348 phosphoribulokinase

Probab=95.69  E-value=0.012  Score=51.79  Aligned_cols=36  Identities=25%  Similarity=0.488  Sum_probs=28.5

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          152 DRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       152 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.....+ ++.-+|+|.|..|+||||+|+.+.+..
T Consensus        37 ~~~~~~~~~~~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         37 SSVVVALAADDGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             HHHHHhhccCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            334444443 467899999999999999999999976

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.68  E-value=0.012  Score=45.88  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++||.|.||||+.+.+....
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L   26 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKAL   26 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHc
Confidence            47889999999999999998876

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=95.67  E-value=0.0099  Score=49.02  Aligned_cols=26  Identities=31%  Similarity=0.305  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         27 QGETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

>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=95.66  E-value=0.01  Score=48.61  Aligned_cols=26  Identities=42%  Similarity=0.461  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998753

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.

>PRK13974 thymidylate kinase; Provisional

Probab=95.66  E-value=0.071  Score=43.14  Aligned_cols=53  Identities=21%  Similarity=0.241  Sum_probs=33.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC---EEEEEEecCcccHHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD---FVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~---~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .+|++.|..|+||||+++.++... ...+...   .++-...+......+..++++.
T Consensus         4 ~~i~~eG~dGsGKsT~~~~l~~~l-~~~g~~~~~~~~~~~~~p~~~~~g~~ir~~l~   59 (212)
T PRK13974          4 KFIVLEGIDGCGKTTQIDHLSKWL-PSSGLMPKGAKLIITREPGGTLLGKSLRELLL   59 (212)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH-HhcCccccCCeeeeeeCCCCCchHHHHHHHHc
Confidence            579999999999999999999987 4433321   1122222222335566666654

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=95.66  E-value=0.0091  Score=50.02  Aligned_cols=23  Identities=26%  Similarity=0.634  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|-||+||||++-.+....
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~l   24 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVAL   24 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            78999999999999888876654

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.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.65  E-value=0.014  Score=53.97  Aligned_cols=27  Identities=30%  Similarity=0.518  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++..+|+|.|..|.||||||+.+....
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            467899999999999999999998754

>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=95.65  E-value=0.0094  Score=48.90  Aligned_cols=26  Identities=46%  Similarity=0.634  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            34689999999999999999998753

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).

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.65  E-value=0.01  Score=45.25  Aligned_cols=22  Identities=36%  Similarity=0.554  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|.+|+|||||++.+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988864

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 ....

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=95.63  E-value=0.012  Score=45.94  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-|+|+|.+|+|||||++.+.+.
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999999765

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

>PRK15453 phosphoribulokinase; Provisional

Probab=95.63  E-value=0.012  Score=49.64  Aligned_cols=26  Identities=27%  Similarity=0.464  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|.|-.|+||||+|+.+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998754

>cd04140 ARHI_like ARHI subfamily

Probab=95.63  E-value=0.01  Score=45.70  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .|.++|.+|+|||||.+.+.+.
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988765

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

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.62  E-value=0.011  Score=47.33  Aligned_cols=26  Identities=42%  Similarity=0.629  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998864

>TIGR00101 ureG urease accessory protein UreG

Probab=95.62  E-value=0.013  Score=47.02  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|+|.|..|.|||||.+.+....
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l   25 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRAL   25 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999999875

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.60  E-value=0.018  Score=53.55  Aligned_cols=46  Identities=15%  Similarity=0.248  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|-+..++.|.+++..+++ +.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999988654 468899999999999999998875

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.60  E-value=0.019  Score=53.53  Aligned_cols=46  Identities=17%  Similarity=0.254  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+...+.|.+.+..+++ +.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l   62 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKAL   62 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999988765 466899999999999999998875

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

Probab=95.60  E-value=0.024  Score=50.54  Aligned_cols=47  Identities=19%  Similarity=0.162  Sum_probs=36.2

Q ss_pred             CCcccccHHHHHHHHHHhc-------C---C--------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLT-------E---E--------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~-------~---~--------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..++|.++.++.+...+.       .   .        .-..|-++|++|+|||+||+.+....
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            4567999998888866551       1   1        12578899999999999999999765

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.

>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=95.60  E-value=0.012  Score=46.02  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998764

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=95.60  E-value=0.01  Score=45.27  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999998864

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

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=95.60  E-value=0.011  Score=48.78  Aligned_cols=25  Identities=32%  Similarity=0.391  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-.+++|+|..|.|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        25 KGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999875

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.60  E-value=0.02  Score=48.07  Aligned_cols=43  Identities=33%  Similarity=0.481  Sum_probs=30.2

Q ss_pred             cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|......+.+..+....-.+|.|.|..|.||||+++.+.+..
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh
Confidence            4555444444444444445689999999999999999886554

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>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=95.59  E-value=0.012  Score=44.70  Aligned_cols=26  Identities=42%  Similarity=0.671  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            44689999999999999999998864

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.

>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=95.59  E-value=0.011  Score=48.76  Aligned_cols=26  Identities=35%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          26 KGEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999998754

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.59  E-value=0.011  Score=46.96  Aligned_cols=25  Identities=40%  Similarity=0.599  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|..|.|||||++.+...
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4569999999999999999999963

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=95.59  E-value=0.011  Score=47.60  Aligned_cols=26  Identities=38%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||.+.+..-.
T Consensus        25 ~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          25 KGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

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

>PRK10908 cell division protein FtsE; Provisional

Probab=95.59  E-value=0.011  Score=48.03  Aligned_cols=26  Identities=38%  Similarity=0.439  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

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

Probab=95.59  E-value=0.032  Score=48.37  Aligned_cols=55  Identities=18%  Similarity=0.200  Sum_probs=42.8

Q ss_pred             CCcccccHHHHH---HHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCE
Q 038742          141 PPAVVGFQSTLD---RVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDF  196 (243)
Q Consensus       141 ~~~~vG~~~~~~---~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~  196 (243)
                      .+.+||..+.++   -+.+++...  .-+.|-|+|++|.|||+||-.+.... -...+|-.
T Consensus        38 ~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eL-G~dvPF~~   97 (450)
T COG1224          38 GDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIAREL-GEDVPFVA   97 (450)
T ss_pred             CCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHh-CCCCCcee
Confidence            355889876554   467777765  46789999999999999999999988 65667743

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=95.59  E-value=0.013  Score=46.27  Aligned_cols=26  Identities=23%  Similarity=0.451  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...-|+|+|.+|+|||||.+.+.+.
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            45778999999999999999999984

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.58  E-value=0.011  Score=49.15  Aligned_cols=24  Identities=42%  Similarity=0.480  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -.+++|+|+.|.|||||.+.+..-
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGl   53 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGL   53 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            478999999999999999999984

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.58  E-value=0.011  Score=47.45  Aligned_cols=26  Identities=35%  Similarity=0.399  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999998653

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=95.58  E-value=0.045  Score=45.16  Aligned_cols=26  Identities=31%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.++-|.|.+|+||||++.++....
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~   88 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEA   88 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35688899999999999999876654

>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=95.58  E-value=0.011  Score=47.80  Aligned_cols=26  Identities=38%  Similarity=0.586  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998754

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.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.57  E-value=0.094  Score=43.72  Aligned_cols=55  Identities=16%  Similarity=0.195  Sum_probs=38.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      -.++.|-|.+|+|||++|..+..+. -.... ..+++++.  +.+..++...++.....
T Consensus        19 g~L~vi~a~pg~GKT~~~l~ia~~~-a~~~~-~~vly~Sl--Em~~~~l~~R~la~~s~   73 (259)
T PF03796_consen   19 GELTVIAARPGVGKTAFALQIALNA-ALNGG-YPVLYFSL--EMSEEELAARLLARLSG   73 (259)
T ss_dssp             T-EEEEEESTTSSHHHHHHHHHHHH-HHTTS-SEEEEEES--SS-HHHHHHHHHHHHHT
T ss_pred             CcEEEEEecccCCchHHHHHHHHHH-HHhcC-CeEEEEcC--CCCHHHHHHHHHHHhhc
Confidence            3467788999999999999999987 33322 56666665  44667787777777654

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.57  E-value=0.01  Score=45.36  Aligned_cols=22  Identities=23%  Similarity=0.357  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.++
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~   23 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSN   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999988653

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=95.57  E-value=0.012  Score=47.04  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998864

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.57  E-value=0.029  Score=52.74  Aligned_cols=53  Identities=28%  Similarity=0.326  Sum_probs=41.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .-+|.-..|++|+||||||..|..+.     -| .++-++.|.+-++..+-..|...+.
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq  377 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQ  377 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHh
Confidence            46688899999999999999999875     23 2577888888887777666665543

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.57  E-value=0.01  Score=45.51  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-|.|+|.+|+|||||...+.+..
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~   26 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDT   26 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999998753

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

>PRK08181 transposase; Validated

Probab=95.57  E-value=0.01  Score=49.95  Aligned_cols=42  Identities=24%  Similarity=0.176  Sum_probs=29.4

Q ss_pred             HHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          156 RCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       156 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      +|+..  -.-+-++|++|+|||.||..+.+..   ......+.++++
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a---~~~g~~v~f~~~  142 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLAL---IENGWRVLFTRT  142 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHH---HHcCCceeeeeH
Confidence            45442  3458999999999999999999876   222334456654

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.57  E-value=0.011  Score=48.96  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .-.+++|+|..|.|||||++.+.-
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         28 EKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            456899999999999999999963

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.56  E-value=0.014  Score=46.08  Aligned_cols=27  Identities=22%  Similarity=0.452  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+|.|.|.+|+||||+|+.+....
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l   42 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKL   42 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            346799999999999999999999875

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.56  E-value=0.011  Score=48.98  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +-.+++|+|..|.|||||++.+..
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         31 QNQVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            456899999999999999999985

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.56  E-value=0.024  Score=52.75  Aligned_cols=47  Identities=19%  Similarity=0.285  Sum_probs=35.7

Q ss_pred             CCcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++..+.|.+..+.|.+....  .+-.+|.++|+.|+||||+|+.+....
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            34456677777766665543  245589999999999999999999876

>COG4240 Predicted kinase [General function prediction only]

Probab=95.56  E-value=0.057  Score=44.06  Aligned_cols=55  Identities=20%  Similarity=0.146  Sum_probs=36.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKK  218 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~  218 (243)
                      +.=+++|.|+-|+|||||+..+++.. ..+.- +..+..++..-+-...=+..++++
T Consensus        49 rPli~gisGpQGSGKStls~~i~~~L-~~kg~-ert~~lSLDDlYlthadrl~La~q  103 (300)
T COG4240          49 RPLIVGISGPQGSGKSTLSALIVRLL-AAKGL-ERTATLSLDDLYLTHADRLRLARQ  103 (300)
T ss_pred             CceEEEeecCCCCchhhHHHHHHHHH-HHhcc-cceEEeehhhhhcchHHHHHHHHh
Confidence            56799999999999999999999987 33332 455555544333222223334444

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

Probab=95.56  E-value=0.025  Score=54.39  Aligned_cols=46  Identities=26%  Similarity=0.439  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.+.+.+..         .....+-++|+.|+|||+||+.+....
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            4478999988888888762         134578899999999999999998875

>PRK14733 coaE dephospho-CoA kinase; Provisional

Probab=95.56  E-value=0.021  Score=46.00  Aligned_cols=25  Identities=20%  Similarity=0.262  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|+|..|+||||+++.+....
T Consensus         6 ~~~IglTG~iGsGKStv~~~l~~~l   30 (204)
T PRK14733          6 TYPIGITGGIASGKSTATRILKEKL   30 (204)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999999999999998753

>PRK13973 thymidylate kinase; Provisional

Probab=95.55  E-value=0.075  Score=43.04  Aligned_cols=24  Identities=21%  Similarity=0.443  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|+|-|..|+||||+++.++...
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~l   27 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAERL   27 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999987

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.55  E-value=0.021  Score=53.74  Aligned_cols=46  Identities=20%  Similarity=0.252  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCc-eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPV-GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+.....|..++..+++ +-+-++|..|+||||+|+.+....
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            4578999999999999987653 567799999999999999998876

>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=95.55  E-value=0.011  Score=47.33  Aligned_cols=21  Identities=24%  Similarity=0.512  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +++|+|..|.|||||++.++.
T Consensus        24 ~~~i~G~nGsGKStll~al~~   44 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRW   44 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            889999999999999999873

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

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

Probab=95.54  E-value=0.011  Score=45.45  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|+|.+|+|||||++.+.+..
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~   24 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAK   24 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCC
Confidence            368999999999999999998864

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.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=95.54  E-value=0.013  Score=46.84  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+|+|+|+.|+||||+++.+.+.
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~   24 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQ   24 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999999875

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.54  E-value=0.012  Score=48.87  Aligned_cols=26  Identities=38%  Similarity=0.482  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         28 DNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34689999999999999999998753

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.54  E-value=0.012  Score=47.94  Aligned_cols=26  Identities=35%  Similarity=0.556  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.54  E-value=0.012  Score=47.35  Aligned_cols=26  Identities=38%  Similarity=0.422  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998864

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=95.53  E-value=0.011  Score=48.83  Aligned_cols=26  Identities=35%  Similarity=0.475  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        26 KNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999997643

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.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.52  E-value=0.012  Score=48.98  Aligned_cols=26  Identities=35%  Similarity=0.484  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999754

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=95.52  E-value=0.012  Score=49.19  Aligned_cols=26  Identities=31%  Similarity=0.380  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+..-.
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.52  E-value=0.038  Score=47.56  Aligned_cols=92  Identities=21%  Similarity=0.338  Sum_probs=60.3

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH-HHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE-KMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~-~i~~~I~  216 (243)
                      ..++|-.++..++-.+|..    +...-+.|+|+.|.|||+|...+..+..+..++|   .-|........+ -.++.|.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHHHH
Confidence            3478988888888888865    3566788999999999999998888742344444   445555544332 2455666


Q ss_pred             HHhcC---------CCHHHHHHHHHHHhh
Q 038742          217 KKIAF---------SSFHEKAQEIFKTMR  236 (243)
Q Consensus       217 ~~l~~---------~~~~~~~~~l~~~L~  236 (243)
                      .|+..         .+..+...+|-+.|+
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~  129 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALK  129 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHh
Confidence            66544         344444555656654

>PRK04328 hypothetical protein; Provisional

Probab=95.52  E-value=0.035  Score=46.19  Aligned_cols=41  Identities=17%  Similarity=0.086  Sum_probs=30.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD  205 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~  205 (243)
                      .-+++-|.|.+|+|||+|+.++....   -..-+..+|++..++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC
Confidence            46789999999999999999865543   122355788887663

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.51  E-value=0.016  Score=50.29  Aligned_cols=38  Identities=24%  Similarity=0.232  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      .-+-++|..|+|||+||..+.+.. -  ..-..+++++++.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l-~--~~g~~V~y~t~~~  221 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL-L--DRGKSVIYRTADE  221 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH-H--HCCCeEEEEEHHH
Confidence            679999999999999999999986 2  2223456666543

>CHL00176 ftsH cell division protein; Validated

Probab=95.50  E-value=0.025  Score=53.33  Aligned_cols=46  Identities=24%  Similarity=0.213  Sum_probs=33.6

Q ss_pred             CcccccHHHHHHHHH---HhcCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWR---CLTEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~---~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.++..+++.+   .|...         ..+-+-++|++|+|||+||+.+.+..
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~  240 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  240 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            457888766555544   44332         24568899999999999999998865

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.50  E-value=0.019  Score=50.17  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .=+-|-.+|++|.|||-||++|+...
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            34578899999999999999999976

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=95.50  E-value=0.012  Score=45.20  Aligned_cols=20  Identities=30%  Similarity=0.625  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 038742          166 VGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~  185 (243)
                      |.|+|.+|+|||||...+.+
T Consensus         2 i~vvG~~~~GKtsli~~~~~   21 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLT   21 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            78999999999999977754

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

>PRK00089 era GTPase Era; Reviewed

Probab=95.50  E-value=0.012  Score=50.05  Aligned_cols=25  Identities=36%  Similarity=0.549  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|+|+|.+|+|||||.+.+...
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~   28 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQ   28 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999998765

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=95.50  E-value=0.012  Score=49.31  Aligned_cols=24  Identities=29%  Similarity=0.642  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||++-.+....
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~l   26 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAF   26 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999888877665

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.50  E-value=0.012  Score=48.48  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         28 GGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998754

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

Probab=95.49  E-value=0.022  Score=54.69  Aligned_cols=47  Identities=28%  Similarity=0.488  Sum_probs=37.7

Q ss_pred             CCcccccHHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++|.+..++.+.+.+...         ...++-++|+.|+|||+||+.+....
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            345789888888888877531         24568899999999999999998875

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.49  E-value=0.047  Score=49.46  Aligned_cols=44  Identities=25%  Similarity=0.290  Sum_probs=29.6

Q ss_pred             ccccHHH--HHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQST--LDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~--~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|-.+.  ...+..+....  ...-+-|+|..|+|||+|++.+.+..
T Consensus       118 v~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l  165 (450)
T PRK14087        118 VIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYI  165 (450)
T ss_pred             cCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHH
Confidence            4565443  33333333322  23568899999999999999999965

>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=95.48  E-value=0.013  Score=48.20  Aligned_cols=26  Identities=38%  Similarity=0.649  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          27 PGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            45689999999999999999998653

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=95.47  E-value=0.014  Score=45.66  Aligned_cols=26  Identities=42%  Similarity=0.505  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998754

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.47  E-value=0.014  Score=45.21  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|..|.|||||.+.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

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.

---

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	243
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-04
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	9e-11
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	4e-08
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-06

>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 = 82.2 bits (202), Expect = 4e-18
 Identities = 34/184 (18%), Positives = 58/184 (31%), Gaps = 48/184 (26%)

Query: 67  VQDVE-KEVPRLLAEIIGKEE--EILGGFCSGNSIER--------HKYGKRVVESLKNVQ 115
           V + + K+V  +   I+ KEE   I+    S +++              + +V+     +
Sbjct: 30  VDNFDCKDVQDMPKSILSKEEIDHIIM---SKDAVSGTLRLFWTLLSKQEEMVQKFVE-E 85

Query: 116 SLRKEGDF-KDVAQTVPENPVDERPLPPAVVGFQSTLDR------------VWR------ 156
            LR    F     +T    P     +      +    DR            V R      
Sbjct: 86  VLRINYKFLMSPIKTEQRQPSMMTRM------YIEQRDRLYNDNQVFAKYNVSRLQPYLK 139

Query: 157 ---CLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIW----EVVSRDLQL 208
               L E  P   V + G+ G GKT +   +  S+         + W       S +  L
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199

Query: 209 EKMQ 212
           E +Q
Sbjct: 200 EMLQ 203

>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 = 39.5 bits (91), Expect = 9e-04
 Identities = 32/232 (13%), Positives = 64/232 (27%), Gaps = 71/232 (30%)

Query: 35  LIEARNDVQIRVLVAEQRQWRRLQQVQGWLSRVQDVEKEVPRLLAEIIGKE-----EEIL 89
           L+  R       L A       L      L+       EV  LL + +         E+L
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLT-----PDEVKSLLLKYLDCRPQDLPREVL 323

Query: 90  GGF---CSG---------NSIERHKYG-----KRVVE-SLKNVQSLRKEGDFKDVAQTV- 130
                  S           + +  K+        ++E SL  ++       F  ++  V 
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS--VF 381

Query: 131 PENPVDERPLPPAVVGFQSTLDRVWRCLTEEPVGIV--GLHGMGGVGKTTLLTQINNSF- 187
           P +      +P  +      L  +W  + +  V +V   LH      K +L+ +      
Sbjct: 382 PPS-A---HIPTIL------LSLIWFDVIKSDVMVVVNKLH------KYSLVEKQPKEST 425

Query: 188 --LHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRN 237
             +                 + LE   +   +     + H    + +   + 
Sbjct: 426 ISIP---------------SIYLELKVKLENEY----ALHRSIVDHYNIPKT 458

>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* Length = 549

 Score = 60.4 bits (146), Expect = 9e-11
 Identities = 28/155 (18%), Positives = 55/155 (35%), Gaps = 12/155 (7%)

Query: 55  RRLQQVQGWLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNV 114
            RL+++  +L   +    E+  L+       +  L  F     +E +         L   
Sbjct: 49  TRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADF-----LEDYIDFAINEPDLLRP 103

Query: 115 QSLRKEGDFKDVAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLTE---EPVGIVGLHGM 171
             +  +   + + + +    V   P        +  +DRV + L E        + LHG 
Sbjct: 104 VVIAPQFSRQMLDRKLLLGNV---PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGR 160

Query: 172 GGVGKTTLLTQI-NNSFLHTSNNFDFVIWEVVSRD 205
            G GK+ + +Q  + S      N+D ++W   S  
Sbjct: 161 AGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT 195

>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 = 52.1 bits (125), Expect = 4e-08
 Identities = 33/185 (17%), Positives = 65/185 (35%), Gaps = 22/185 (11%)

Query: 63  WLSRVQDVEKEVPRLLAEIIGKEEEILGGFCSGNSIERHKYGKRVVESLKNVQSLRKEGD 122
            +      ++    L+  I+ K+ +    F   N++    Y K +   L +   +     
Sbjct: 42  KVRNEPTQQQRAAMLIKMILKKDNDSYVSFY--NALLHEGY-KDLAALLHDGIPVVSSSS 98

Query: 123 FKD--------VAQTVPENPVDERPLPPAVVGFQSTLDRVWRCLT--EEPVGIVGLHGMG 172
            KD        V   + E  V +   P   V  +  ++ + + L+  +   G V +HGM 
Sbjct: 99  GKDSVSGITSYVRTVLCEGGVPQ--RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMA 156

Query: 173 GVGKTTLLTQINNSFLHTSNNF-DFVIWEVVSRD------LQLEKMQESIAKKIAFSSFH 225
           G GK+ L  +           F   V W  V +       ++L+ +   + +  +FS   
Sbjct: 157 GCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRL 216

Query: 226 EKAQE 230
               E
Sbjct: 217 PLNIE 221

>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* Length = 1249

 Score = 46.4 bits (110), Expect = 4e-06
 Identities = 17/107 (15%), Positives = 34/107 (31%), Gaps = 3/107 (2%)

Query: 139 PLPPAVVGFQSTLDRVWRCL--TEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF-D 195
             P   V  +  +  + + L       G V ++GM G GK+ L  +           F  
Sbjct: 121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSG 180

Query: 196 FVIWEVVSRDLQLEKMQESIAKKIAFSSFHEKAQEIFKTMRNTKFVL 242
            V W  + +  +   + +     +        +Q +   +   K  L
Sbjct: 181 GVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRL 227

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	243
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.79
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.58
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.52
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.51
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.44
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.93
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.71
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.7
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.7
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.66
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.65
2fna_A	357	Conserved hypothetical protein; structural genomic	98.4
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.23
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.17
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.13
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.12
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.91
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.77
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.72
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.69
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.58
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.58
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.58
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.57
3bos_A	242	Putative DNA replication factor; P-loop containing	97.56
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.55
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.47
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.45
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.44
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.43
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.43
3pvs_A	447	Replication-associated recombination protein A; ma	97.4
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.4
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.39
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.38
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.37
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.33
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.3
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.29
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.27
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.26
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.26
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.24
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.23
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.22
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.22
3co5_A	143	Putative two-component system transcriptional RES	97.21
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.2
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.2
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.16
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.13
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.13
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.13
2hf9_A	226	Probable hydrogenase nickel incorporation protein	97.1
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.07
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.06
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.06
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.04
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.04
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.04
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.03
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.03
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.01
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.0
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.98
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.98
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.98
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.97
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.95
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.93
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.93
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.92
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.9
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.89
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.89
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.88
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.88
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.87
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.83
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.83
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.82
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.82
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.81
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.81
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.8
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.8
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.79
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.79
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.79
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.78
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.78
2xxa_A	433	Signal recognition particle protein; protein trans	96.78
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.78
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.78
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.78
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.77
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.77
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.76
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.75
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.74
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.73
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.73
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.73
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.73
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.73
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.71
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.71
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.69
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.69
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.69
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.69
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.68
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.68
1via_A	175	Shikimate kinase; structural genomics, transferase	96.67
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.66
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.66
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.65
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.64
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.64
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.64
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.64
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.63
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.63
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.63
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.63
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.63
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.63
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.63
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.62
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.61
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.61
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.61
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.6
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.59
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.59
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.59
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.59
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.58
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.55
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.54
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.54
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.53
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.53
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.52
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.52
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.52
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.51
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.51
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.51
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.5
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.49
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.49
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.49
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.48
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.48
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.46
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.46
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.45
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.45
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.44
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.44
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.43
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.43
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.42
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.42
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.41
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.41
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.4
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.38
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.37
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.36
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.36
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.35
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.34
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.33
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.32
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.32
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.32
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.31
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.3
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.29
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.28
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.27
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.27
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.26
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.25
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.25
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.24
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.24
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.24
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.23
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.23
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.21
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.21
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.19
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.19
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.18
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.18
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.17
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.17
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.17
2qgz_A	308	Helicase loader, putative primosome component; str	96.17
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.16
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.15
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.15
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.14
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.13
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.12
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.11
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.11
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.11
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.11
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.1
1g6h_A	257	High-affinity branched-chain amino acid transport	96.09
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.09
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.08
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.08
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.08
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.08
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.06
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.06
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.05
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.05
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.05
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.04
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.04
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.04
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.04
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.03
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.03
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.03
3end_A	307	Light-independent protochlorophyllide reductase ir	96.02
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.02
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.02
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.01
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.01
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.01
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.0
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.96
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.96
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	95.96
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.96
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.96
2og2_A	359	Putative signal recognition particle receptor; nuc	95.95
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.95
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.95
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.94
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.94
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.94
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.93
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.93
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.92
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.92
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.9
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.9
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.9
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.89
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.88
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.88
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.87
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.86
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.86
3io5_A	333	Recombination and repair protein; storage dimer, i	95.84
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.83
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.82
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.78
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.78
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.78
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.77
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.77
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.77
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.76
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.75
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.74
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.72
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.72
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.72
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.71
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.71
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.7
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.69
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.68
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.67
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.66
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.66
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.66
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.66
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.65
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.65
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.65
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.65
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.65
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.64
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.64
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.62
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.6
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.59
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.59
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.59
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.58
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.58
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.56
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.56
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.56
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.55
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.55
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.55
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.54
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.54
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.53
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.53
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.52
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.52
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.52
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.51
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.5
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.5
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.49
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.49
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.49
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.48
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.48
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.47
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.46
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.46
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.45
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.43
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.43
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.43
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.42
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.41
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.41
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.4
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.39
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.38
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.38
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.38
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.38
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.38
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.37
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.37
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.37
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.37
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.37
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.37
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.35
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.35
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.34
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.33
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.33
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.32
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.32
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.31
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.31
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.31
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.3
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.3
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.3
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.3
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.29
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.29
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.29
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.28
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.28
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.28
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.28
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.24
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.22
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.22
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.21
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.21
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.2
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.19
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.19
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	95.18
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.17
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.17
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.17
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.16
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.16
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.14
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.14
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.14
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.14
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.12
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.12
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.11
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.1
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.1
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.1
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.1
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.08
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.07
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.07
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.06
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.05
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.05
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.05
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.04
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.03
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	95.02
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.02
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.01
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.0
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.97
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.95
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.95
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.93
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.92
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.91
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.91
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.9
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.9
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.9
3ice_A	422	Transcription termination factor RHO; transcriptio	94.89
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.89
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.87
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.87
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.86
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.86
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.85
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.84
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.83
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.83
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.8
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.8
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.8
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.77
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	94.76
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.75
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.75
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.73
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.72
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.72
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.7
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.7
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.7
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.7
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	94.67
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.64
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.61
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.6
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.6
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.54
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.54
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.52
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.51
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.53
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	94.49
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.46
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.46
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.45
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.44
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.4
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.4
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.38
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.36
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.36
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.36
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.35
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.35
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	94.34
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.34
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	94.33
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.32
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.32
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.3
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.29
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	94.27
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.24
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	94.24
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.17
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.16
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.16
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	94.16
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.15
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.09
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.09
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	94.07
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.06
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.06
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	93.98
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.97
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.97
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	93.96
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	93.95
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	93.95
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	93.93
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.92
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.91
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	93.9
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.89
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.87
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.85
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.83
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	93.8
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.8
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.79

>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=99.79  E-value=3.1e-19  Score=162.94  Aligned_cols=101  Identities=18%  Similarity=0.161  Sum_probs=88.7

Q ss_pred             CcccccHHHHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHh--hhcccCCCCCEEEEEEecCcc--cHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEE---PVGIVGLHGMGGVGKTTLLTQINN--SFLHTSNNFDFVIWEVVSRDL--QLEKMQES  214 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~v~~~F~~~~wv~vs~~~--~~~~i~~~  214 (243)
                      +..+||+.++++|.++|..+   +.++|+|+||||+||||||+.+|+  +. ++..+|++++||++++.+  ++..++.+
T Consensus       128 ~~~~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          128 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CccCCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHH
Confidence            33369999999999999754   689999999999999999999998  56 789999999999999985  89999999


Q ss_pred             HHHHhcCC------------CHHHHHHHHHHHhhcC-ceEEC
Q 038742          215 IAKKIAFS------------SFHEKAQEIFKTMRNT-KFVLL  243 (243)
Q Consensus       215 I~~~l~~~------------~~~~~~~~l~~~L~~k-r~Llv  243 (243)
                      |+.+++..            +...+...+++.|.+| |||||
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlV  248 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV  248 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEE
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEE
Confidence            99998751            3456789999999996 99987

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.58  E-value=1.9e-15  Score=144.11  Aligned_cols=100  Identities=21%  Similarity=0.267  Sum_probs=83.4

Q ss_pred             cccccHHHHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCE-EEEEEecCcccHHHHHHHHHHHhc
Q 038742          143 AVVGFQSTLDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDF-VIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~-~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      ..+||+.++++|.++|.. ++.++|+|+||||+||||||+.+|++. ++..+|++ ++|+++++.++...++..|+..++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            349999999999999986 568999999999999999999999987 77889987 999999999999888888877533


Q ss_pred             C--------C--------CHHHHHHHHHHHh---hcCceEEC
Q 038742          221 F--------S--------SFHEKAQEIFKTM---RNTKFVLL  243 (243)
Q Consensus       221 ~--------~--------~~~~~~~~l~~~L---~~kr~Llv  243 (243)
                      .        .        +.+++...|++.|   .+||||||
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLV  249 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV  249 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEE
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEE
Confidence            2        0        2345566777766   67999986

>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=99.52  E-value=3.5e-14  Score=139.67  Aligned_cols=102  Identities=18%  Similarity=0.249  Sum_probs=83.4

Q ss_pred             CCcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhccc-CCCC-CEEEEEEecCccc--HHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHT-SNNF-DFVIWEVVSRDLQ--LEKMQES  214 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v-~~~F-~~~~wv~vs~~~~--~~~i~~~  214 (243)
                      ++.++||+.++++|.++|..  ++.++|+|+||||+||||||+.+|++. +. ..+| +.++||++++..+  ....+..
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~-~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDH-SLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCH-HHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcCh-hHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            45689999999999999964  578999999999999999999999986 43 5555 6778999998544  4445677


Q ss_pred             HHHHhcC---------CCHHHHHHHHHHHhhcC--ceEEC
Q 038742          215 IAKKIAF---------SSFHEKAQEIFKTMRNT--KFVLL  243 (243)
Q Consensus       215 I~~~l~~---------~~~~~~~~~l~~~L~~k--r~Llv  243 (243)
                      ++..+..         .+.+.+...++..|.+|  |||||
T Consensus       202 ~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~Llv  241 (1249)
T 3sfz_A          202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLI  241 (1249)
T ss_dssp             HHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEE
T ss_pred             HHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEE
Confidence            7777765         35688889999999877  99986

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.51  E-value=7.7e-14  Score=101.22  Aligned_cols=80  Identities=6%  Similarity=0.071  Sum_probs=69.7

Q ss_pred             ccccccchhhhhHHHhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhchHhHHHHHHHHHHHHhHHHHHHHHH-HH
Q 038742            6 SVSFSCDDTISHCLDCITILLPLRTEFQKLIEARNDVQIRVLVAEQRQ-WRRLQQVQGWLSRVQDVEKEVPRLLAEI-IG   83 (243)
Q Consensus         6 ~~~~~~~~l~~~l~~~~~~~~~l~~~l~~L~~~l~~v~~~l~~a~~~~-~~~~~~v~~Wl~~l~~~~~d~ed~ld~~-~~   83 (243)
                      .++.+++++.+.+......+.+++++++.|+++|..|+++|.+++.+. ...++.++.|+.++|+++||+||+||+| ++
T Consensus         2 ~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~   81 (115)
T 3qfl_A            2 AISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQ   81 (115)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            366777888888877777799999999999999999999999999873 2345899999999999999999999999 66


Q ss_pred             hh
Q 038742           84 KE   85 (243)
Q Consensus        84 ~~   85 (243)
                      ..
T Consensus        82 ~~   83 (115)
T 3qfl_A           82 VD   83 (115)
T ss_dssp             HH
T ss_pred             hc
Confidence            54

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.44  E-value=3e-13  Score=124.07  Aligned_cols=101  Identities=19%  Similarity=0.309  Sum_probs=79.6

Q ss_pred             CCcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhhccc-CCCC-CEEEEEEecCcccHHHHHHHH-
Q 038742          141 PPAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSFLHT-SNNF-DFVIWEVVSRDLQLEKMQESI-  215 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v-~~~F-~~~~wv~vs~~~~~~~i~~~I-  215 (243)
                      ++.++||+.+++.|.++|..  ++.++|+|+||||+||||||..+|++. .+ ..+| +.++|++++.. +...++..+ 
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            35689999999999999974  468999999999999999999999976 55 6789 58999999876 333444433 


Q ss_pred             --HHHhcC---------CCHHHHHHHHHHHhhc--CceEEC
Q 038742          216 --AKKIAF---------SSFHEKAQEIFKTMRN--TKFVLL  243 (243)
Q Consensus       216 --~~~l~~---------~~~~~~~~~l~~~L~~--kr~Llv  243 (243)
                        +..++.         .+...+...++..|.+  +++|||
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLV  241 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLI  241 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEE
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEE
Confidence              444441         4567788889999887  688886

>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=98.93  E-value=3.4e-09  Score=92.47  Aligned_cols=101  Identities=12%  Similarity=0.125  Sum_probs=74.4

Q ss_pred             CcccccHHHHHHHHHHh-c----C--CCceEEEE--EcCCCCcHHHHHHHHHhhhcccC---CCCCE-EEEEEecCcccH
Q 038742          142 PAVVGFQSTLDRVWRCL-T----E--EPVGIVGL--HGMGGVGKTTLLTQINNSFLHTS---NNFDF-VIWEVVSRDLQL  208 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~v~---~~F~~-~~wv~vs~~~~~  208 (243)
                      +.++||+.+++.|..+| .    .  .....+.|  +|++|+||||||+.+++.. ...   ..|+. .+|+......+.
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV-SEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH-HHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHH-HHHHhccCCceeEEEEECCCCCCH
Confidence            56899999999999988 3    2  23445555  9999999999999999876 321   12332 577777677789


Q ss_pred             HHHHHHHHHHhcC------CCHHHHHHHHHHHhh--cCceEEC
Q 038742          209 EKMQESIAKKIAF------SSFHEKAQEIFKTMR--NTKFVLL  243 (243)
Q Consensus       209 ~~i~~~I~~~l~~------~~~~~~~~~l~~~L~--~kr~Llv  243 (243)
                      ..++..|+.+++.      .+...+...+.+.|.  +++++||
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llv  143 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVI  143 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            9999999999875      235566777777775  4566553

>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=98.71  E-value=4.6e-08  Score=84.20  Aligned_cols=95  Identities=13%  Similarity=0.132  Sum_probs=70.6

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCC-CCEEEEEEecCcccHHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN-FDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~-F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      +.++||+.+++.+.+++..    .....+.|+|++|+||||||+.+++.. ..... -...+|+..+...+...++..++
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL-HKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHH-HHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            6689999999999998874    456789999999999999999999976 22110 12467777766667778888887


Q ss_pred             HHhcC------CCHHHHHHHHHHHhhc
Q 038742          217 KKIAF------SSFHEKAQEIFKTMRN  237 (243)
Q Consensus       217 ~~l~~------~~~~~~~~~l~~~L~~  237 (243)
                      .+++.      .+..+....+.+.+..
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~  125 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRD  125 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHT
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhc
Confidence            77654      2355666667777653

>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=98.70  E-value=5.5e-08  Score=83.98  Aligned_cols=98  Identities=16%  Similarity=0.023  Sum_probs=74.8

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccC----CC--CCEEEEEEecCcc-cHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NN--FDFVIWEVVSRDL-QLEK  210 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~--F~~~~wv~vs~~~-~~~~  210 (243)
                      +.++||+..++.+..+|..    ...+.+.|+|++|+||||||+.+++.. ...    ..  ....+|+..+... +...
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~-~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   98 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI-EEVKKEDEEYKDVKQAYVNCREVGGTPQA   98 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHH-HHHHHHSSSSTTCEEEEEEHHHHCSCHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH-HHHhhhhcCCCCceEEEEECccCCCCHHH
Confidence            5689999999999877754    356789999999999999999999975 221    11  2356788877767 8888


Q ss_pred             HHHHHHHHhcC-------CCHHHHHHHHHHHhhcCce
Q 038742          211 MQESIAKKIAF-------SSFHEKAQEIFKTMRNTKF  240 (243)
Q Consensus       211 i~~~I~~~l~~-------~~~~~~~~~l~~~L~~kr~  240 (243)
                      ++..++.++..       .+...+...+.+.+..++.
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~  135 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRA  135 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCE
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCC
Confidence            99999988832       3446677788888877663

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.70  E-value=7e-08  Score=82.01  Aligned_cols=68  Identities=18%  Similarity=0.163  Sum_probs=53.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc------cHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL------QLEKMQESI  215 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~------~~~~i~~~I  215 (243)
                      +.++||+.+++.|.+++...  +++.|+|++|+|||||++.+.+..   .     .+|+......      +...++..+
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKEL   81 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHHH
Confidence            56899999999999988764  789999999999999999999864   1     5677665432      556666666


Q ss_pred             HHHh
Q 038742          216 AKKI  219 (243)
Q Consensus       216 ~~~l  219 (243)
                      ...+
T Consensus        82 ~~~l   85 (350)
T 2qen_A           82 QSTI   85 (350)
T ss_dssp             HHHS
T ss_pred             HHHH
Confidence            6544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.66  E-value=8.8e-08  Score=82.49  Aligned_cols=95  Identities=17%  Similarity=0.173  Sum_probs=72.6

Q ss_pred             CcccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKMQE  213 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~  213 (243)
                      +.++||+..++.+..+|..    ...+.+.|+|++|+||||||+.+++.. ...    ..--..+|+..+...+...++.
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL-EARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHH-HHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH-HHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            5689999999999998843    456789999999999999999999875 221    0012357777777778888999


Q ss_pred             HHHHHhcC------CCHHHHHHHHHHHhhc
Q 038742          214 SIAKKIAF------SSFHEKAQEIFKTMRN  237 (243)
Q Consensus       214 ~I~~~l~~------~~~~~~~~~l~~~L~~  237 (243)
                      .++.+++.      .+..++...+.+.+..
T Consensus        98 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~  127 (387)
T 2v1u_A           98 AIAEAVGVRVPFTGLSVGEVYERLVKRLSR  127 (387)
T ss_dssp             HHHHHHSCCCCSSCCCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhc
Confidence            99998875      2356667777777743

>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=98.65  E-value=2.9e-07  Score=79.39  Aligned_cols=92  Identities=15%  Similarity=0.101  Sum_probs=71.1

Q ss_pred             CcccccHHHHHHHHHHhcC----CCce--EEEEEcCCCCcHHHHHHHHHhhhcccCCCC-CEEEEEEecCcccHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE----EPVG--IVGLHGMGGVGKTTLLTQINNSFLHTSNNF-DFVIWEVVSRDLQLEKMQES  214 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F-~~~~wv~vs~~~~~~~i~~~  214 (243)
                      +.++||+..++.+..++..    ....  .+.|+|++|+|||||++.+.+..   .... -..+|+..+...+...++..
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHHH
Confidence            5689999999999998865    2333  89999999999999999999986   3321 24567777777788899999


Q ss_pred             HHHHhcC------CCHHHHHHHHHHHhh
Q 038742          215 IAKKIAF------SSFHEKAQEIFKTMR  236 (243)
Q Consensus       215 I~~~l~~------~~~~~~~~~l~~~L~  236 (243)
                      ++..++.      .+...+...+.+.+.
T Consensus        94 l~~~l~~~~~~~~~~~~~~~~~l~~~l~  121 (389)
T 1fnn_A           94 IARSLNIPFPRRGLSRDEFLALLVEHLR  121 (389)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHhCccCCCCCCCHHHHHHHHHHHHh
Confidence            9988865      245666666777664

>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=98.40  E-value=1.2e-06  Score=74.46  Aligned_cols=67  Identities=12%  Similarity=0.176  Sum_probs=50.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc-----ccHHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD-----LQLEKMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-----~~~~~i~~~I~  216 (243)
                      +.++||+.+++.|.+ +..   +++.|+|++|+|||||++.+.+..   ..+   .+|+.....     .+...++..+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~~---~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CCC---EEEEEchhhccccCCCHHHHHHHHH
Confidence            568999999999999 765   699999999999999999999876   222   578876642     34455555544


Q ss_pred             HH
Q 038742          217 KK  218 (243)
Q Consensus       217 ~~  218 (243)
                      +.
T Consensus        83 ~~   84 (357)
T 2fna_A           83 KE   84 (357)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.23  E-value=1.7e-06  Score=66.59  Aligned_cols=46  Identities=24%  Similarity=0.351  Sum_probs=41.3

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|+++.++.+.+.+.......+-|+|++|+||||||+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999988766778899999999999999999875

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.17  E-value=7.5e-06  Score=69.26  Aligned_cols=77  Identities=12%  Similarity=0.053  Sum_probs=57.8

Q ss_pred             ccccHHHHHHHHHHhcC----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCC---C-C-EEEEEEecCcccHHHHHHH
Q 038742          144 VVGFQSTLDRVWRCLTE----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN---F-D-FVIWEVVSRDLQLEKMQES  214 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~---F-~-~~~wv~vs~~~~~~~i~~~  214 (243)
                      +.||+++++.|...|..    .....+-|+|++|+|||++++.|.+.. .....   . . .++.++...-.+...++..
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L-~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDEL-ITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHH-HHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            68999999999887764    467788999999999999999999987 32211   1 1 2445555555678889999


Q ss_pred             HHHHhcC
Q 038742          215 IAKKIAF  221 (243)
Q Consensus       215 I~~~l~~  221 (243)
                      |++++.+
T Consensus       101 I~~~L~g  107 (318)
T 3te6_A          101 IWFAISK  107 (318)
T ss_dssp             HHHHHSC
T ss_pred             HHHHhcC
Confidence            9999965

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.13  E-value=2.7e-06  Score=65.33  Aligned_cols=46  Identities=24%  Similarity=0.328  Sum_probs=41.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|++..++.+.+.+.......+-|+|++|+||||||+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999988766777899999999999999999875

>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=98.12  E-value=4.9e-06  Score=65.48  Aligned_cols=46  Identities=20%  Similarity=0.302  Sum_probs=40.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|++..++.+.+++.......+.|+|++|+||||||+.+++..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999988765569999999999999999999874

>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=97.91  E-value=1e-05  Score=64.41  Aligned_cols=46  Identities=24%  Similarity=0.289  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|++..++.+..++.... .+.+.|+|++|+||||||+.+++..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999997653 4588999999999999999999876

>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=97.77  E-value=1.6e-05  Score=66.53  Aligned_cols=46  Identities=26%  Similarity=0.437  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+.+++..+..+.+-++|++|+||||+|+.+.+..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999999999988765559999999999999999999875

>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=97.72  E-value=4e-05  Score=64.26  Aligned_cols=46  Identities=22%  Similarity=0.307  Sum_probs=41.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+.+++..+..+.+-++|++|+||||+|+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999999999988766669999999999999999999875

>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=97.69  E-value=0.00013  Score=61.32  Aligned_cols=92  Identities=17%  Similarity=0.216  Sum_probs=57.6

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      .+++|++..+..+..++..     .....+-|+|++|+||||||+.+++..   ...|   .++..+.......+...+.
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~~---~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVNL---RVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCCE---EEECTTTCCSHHHHHHHHT
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCCE---EEEeccccCChHHHHHHHH
Confidence            4589999998888887753     244678899999999999999999976   3222   3444443334444444332


Q ss_pred             HHhcC------CC----HHHHHHHHHHHhhcCc
Q 038742          217 KKIAF------SS----FHEKAQEIFKTMRNTK  239 (243)
Q Consensus       217 ~~l~~------~~----~~~~~~~l~~~L~~kr  239 (243)
                      ..+..      ++    .......|...+.+.+
T Consensus        86 ~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~  118 (324)
T 1hqc_A           86 NSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFV  118 (324)
T ss_dssp             TTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSE
T ss_pred             HhccCCCEEEEECCcccccchHHHHHHHHHhhh
Confidence            21222      11    1334556666666543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.58  E-value=6.2e-05  Score=56.01  Aligned_cols=45  Identities=22%  Similarity=0.189  Sum_probs=34.9

Q ss_pred             cccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.+..+.++.+.+..  ....-|-|+|.+|+|||+||+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            478999888888887753  222346799999999999999999864

>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=97.58  E-value=0.0001  Score=56.64  Aligned_cols=41  Identities=22%  Similarity=0.179  Sum_probs=30.9

Q ss_pred             cHHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .....+.+.+++.+   .+-..+.|+|++|+|||||++.+++..
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            34455555555543   245789999999999999999999976

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.58  E-value=6.4e-05  Score=62.04  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=38.8

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+.+..             ....-+-|+|++|+||||||+.+.+..
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4589999999999887743             245678999999999999999999876

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.57  E-value=7.4e-05  Score=66.57  Aligned_cols=46  Identities=26%  Similarity=0.363  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|++..++.++..|......-+-++|.+|+|||+||+.+....
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999977555556799999999999999999875

>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=97.56  E-value=0.00015  Score=57.78  Aligned_cols=59  Identities=10%  Similarity=0.016  Sum_probs=41.1

Q ss_pred             ccccc---HHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          143 AVVGF---QSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       143 ~~vG~---~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      +++|.   +..++.+..++.......+-|+|++|+||||||+.+.+.. ...  .....|+..+.
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~-~~~--~~~~~~~~~~~   90 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARA-NEL--ERRSFYIPLGI   90 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHH-HHT--TCCEEEEEGGG
T ss_pred             hccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHc--CCeEEEEEHHH
Confidence            45552   4556667766666567789999999999999999999976 322  23345666543

>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=97.55  E-value=6.2e-05  Score=63.91  Aligned_cols=46  Identities=15%  Similarity=0.219  Sum_probs=40.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.+..++.......+-++|++|+||||||+.+.+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999988755558999999999999999999875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.47  E-value=0.00016  Score=60.25  Aligned_cols=45  Identities=24%  Similarity=0.440  Sum_probs=36.0

Q ss_pred             cccccHHHHHHHHHHhc---------------CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT---------------EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.+..++.+.+++.               ......+-|+|++|+|||+||+.+.+..
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            47899888888776653               2345578999999999999999888876

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.45  E-value=0.00014  Score=60.73  Aligned_cols=46  Identities=20%  Similarity=0.302  Sum_probs=40.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+.+++..+..+.+-++|++|+||||+|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            4589999999999999988765558999999999999999999874

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.44  E-value=0.00015  Score=56.75  Aligned_cols=52  Identities=29%  Similarity=0.239  Sum_probs=35.5

Q ss_pred             HHHHHHHHHhcCC----CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          149 STLDRVWRCLTEE----PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       149 ~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      ..++.+..++...    ....+-|+|++|+||||||+.+++.. .  .....+++++.+
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~-~--~~~~~~~~~~~~   91 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANEL-A--KRNVSSLIVYVP   91 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHH-H--TTTCCEEEEEHH
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEEhH
Confidence            3445555665543    12688999999999999999999986 2  333345666543

>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=97.43  E-value=0.00017  Score=58.59  Aligned_cols=46  Identities=22%  Similarity=0.179  Sum_probs=35.7

Q ss_pred             CcccccHHHHHHHHHHhc---C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT---E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+.+++.   .         ...+-+-++|++|+||||||+.+.+..
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~   63 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA   63 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            458999988777766542   2         123457899999999999999999976

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.43  E-value=0.00016  Score=60.09  Aligned_cols=46  Identities=20%  Similarity=0.213  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+.+++..            ...+.+-|+|++|+||||||+.+.+..
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999998887732            235688999999999999999999876

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.40  E-value=0.00011  Score=65.14  Aligned_cols=46  Identities=28%  Similarity=0.274  Sum_probs=40.7

Q ss_pred             CcccccHHHH---HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTL---DRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..+   ..+...+.....+.+-++|++|+||||||+.+.+..
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh
Confidence            4589999888   778888888888889999999999999999999976

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.40  E-value=0.00015  Score=61.44  Aligned_cols=46  Identities=24%  Similarity=0.305  Sum_probs=38.9

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+..++..     .....+-|+|++|+|||+||+.+.+..
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999998888863     345678999999999999999998865

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.39  E-value=0.00021  Score=61.10  Aligned_cols=46  Identities=24%  Similarity=0.289  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|++..++.+.+.+..+. .+.+-|+|++|+||||+|+.+.+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999997754 4578899999999999999998876

>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=97.38  E-value=0.00017  Score=60.40  Aligned_cols=46  Identities=24%  Similarity=0.251  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+++..             ...+.+.++|++|+||||||+.+.+..
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            4589999888888877642             245678999999999999999999976

>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=97.37  E-value=0.00017  Score=64.93  Aligned_cols=46  Identities=22%  Similarity=0.270  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhcC-----------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|++..++.+.++|..                 ...+.+-|+|++|+||||||+.+.+..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999999999975                 134789999999999999999999875

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.33  E-value=0.00012  Score=62.19  Aligned_cols=45  Identities=18%  Similarity=0.069  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHh-cCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          142 PAVVGFQSTLDRVWRCL-TEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ++++|.+...+.+.+++ ...+...+.|+|+.|+|||||++.+...
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45799999999999998 6655444999999999999999999885

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.30  E-value=0.00028  Score=60.33  Aligned_cols=46  Identities=22%  Similarity=0.328  Sum_probs=36.8

Q ss_pred             CcccccHHHHHH---HHHHhcCCCc--eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDR---VWRCLTEEPV--GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.   +...+.....  +.+-|+|++|+|||+||+.+.+..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999988665   5555555433  589999999999999999999987

>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=97.29  E-value=0.00027  Score=60.61  Aligned_cols=46  Identities=20%  Similarity=0.167  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+.+..            ...+.+-|+|++|+|||+||+.+.+..
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~  141 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS  141 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999998887742            245678999999999999999999875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.27  E-value=0.00026  Score=66.72  Aligned_cols=46  Identities=26%  Similarity=0.363  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|++..++.++..|......-+-++|.+|+||||+|+.+.+..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999987655557899999999999999999874

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.26  E-value=0.00026  Score=60.17  Aligned_cols=46  Identities=20%  Similarity=0.294  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|...+..++++.+.++|++|+||||+|+.+....
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3468999999999988888765558999999999999999998874

>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=97.26  E-value=0.00026  Score=58.81  Aligned_cols=46  Identities=20%  Similarity=0.209  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHhcC--------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE--------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..++.+...+..              ....-+-++|.+|+|||+||+.+.+..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999988887754              234567799999999999999999876

>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=97.24  E-value=0.00031  Score=59.23  Aligned_cols=46  Identities=20%  Similarity=0.301  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhc----------C--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT----------E--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+.+.          .  ...+-+-++|++|+|||+||+.+.+..
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            458999999999988772          1  134578899999999999999999976

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.23  E-value=0.00035  Score=59.03  Aligned_cols=46  Identities=20%  Similarity=0.270  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|.++.++.|.+.+..            ...+-|-++|++|+|||+||+.+.+..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            4589999988888876631            134678899999999999999999864

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.22  E-value=0.00023  Score=68.00  Aligned_cols=46  Identities=26%  Similarity=0.359  Sum_probs=40.4

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|++..+..+++.|......-+.++|.+|+||||||+.+.+..
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4479999999999999987655567899999999999999999875

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.22  E-value=0.00029  Score=57.24  Aligned_cols=46  Identities=26%  Similarity=0.232  Sum_probs=34.8

Q ss_pred             CcccccHHHHHHHHHHh---cC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCL---TE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+.+.+   ..         ...+-+.|+|++|+||||||+.+.+..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            45899988777665543   22         123458899999999999999999976

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.21  E-value=9.2e-05  Score=54.95  Aligned_cols=46  Identities=15%  Similarity=0.093  Sum_probs=33.6

Q ss_pred             CcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.++|.+..+.++.+.+..  ....-|-|+|.+|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3478998888888887753  222346799999999999999999865

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.20  E-value=0.00043  Score=54.27  Aligned_cols=41  Identities=22%  Similarity=0.455  Sum_probs=32.9

Q ss_pred             cHHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.++.|.+.+..   ....+|+|.|..|+|||||++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45566777777764   356799999999999999999998865

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.20  E-value=0.0004  Score=65.36  Aligned_cols=46  Identities=24%  Similarity=0.320  Sum_probs=40.6

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|++..++.+++.|......-+-++|.+|+||||+|+.+.+..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            4579999999999999987666667899999999999999999875

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.16  E-value=0.00024  Score=60.37  Aligned_cols=46  Identities=28%  Similarity=0.348  Sum_probs=36.1

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..++.+-..+..     .....+.++|++|+||||||+.+.+..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            3468888777776666543     245679999999999999999999976

>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=97.13  E-value=0.00023  Score=53.73  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47999999999999999999 543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.13  E-value=0.00052  Score=54.03  Aligned_cols=39  Identities=26%  Similarity=0.336  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+.|.+.+..  .+-.+|+|+|..|.|||||++.+....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345556666653  356799999999999999999998876

>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=97.13  E-value=0.00064  Score=55.71  Aligned_cols=46  Identities=24%  Similarity=0.300  Sum_probs=35.0

Q ss_pred             CcccccHHHHHHHHH-------Hhc---CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWR-------CLT---EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+...+.++.       .+.   .....-+-|+|++|+|||+||+.+.+..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            346777766666555       332   3456788899999999999999999975

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=97.10  E-value=0.00056  Score=54.18  Aligned_cols=40  Identities=23%  Similarity=0.331  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          148 QSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       148 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++..+.+...+...+..+|.|+|.+|+|||||+..+....
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555555555678999999999999999999998875

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.07  E-value=0.00045  Score=51.67  Aligned_cols=26  Identities=23%  Similarity=0.240  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-..+.|+|..|+|||||++.+++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            55689999999999999999999976

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.06  E-value=0.00041  Score=57.79  Aligned_cols=46  Identities=28%  Similarity=0.446  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.+...+...         ....+.++|++|+||||||+.+.+..
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            34789988888888777542         24689999999999999999999975

>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=97.06  E-value=0.00029  Score=57.51  Aligned_cols=46  Identities=22%  Similarity=0.161  Sum_probs=35.0

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.+.+.+..            ...+-+-++|++|+|||+||+.+++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            4588988877777765531            112347799999999999999999976

>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=97.04  E-value=0.00037  Score=52.64  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||+++.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998774

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.04  E-value=0.00069  Score=56.90  Aligned_cols=46  Identities=13%  Similarity=0.034  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+...+.+.+++...+ .+++-+.|++|+||||+|+.+.+..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            568999999999999998764 4677888999999999999999875

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.04  E-value=0.0007  Score=58.62  Aligned_cols=46  Identities=20%  Similarity=0.186  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+++..            ...+-+-|+|.+|+|||+||+.+.+..
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999988732            234678999999999999999998875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.03  E-value=0.00053  Score=54.13  Aligned_cols=43  Identities=21%  Similarity=0.228  Sum_probs=34.2

Q ss_pred             cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+.++..+.+...+...+..+|+|+|.+|+|||||+..+....
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           12 AENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3455666667776666678999999999999999999988763

>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=97.03  E-value=0.00061  Score=58.39  Aligned_cols=46  Identities=20%  Similarity=0.286  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.+..++.|.+.+..            ...+-|-++|++|+|||+||+.+.+..
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            4589999999988887731            123458899999999999999999976

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.01  E-value=0.00044  Score=56.45  Aligned_cols=46  Identities=15%  Similarity=0.157  Sum_probs=33.8

Q ss_pred             CcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..+..+.+.+..  ....-+-|+|.+|+|||+||+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            3478998888888776643  223456799999999999999999875

>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=97.00  E-value=0.00041  Score=53.55  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|+.|+|||||++.+...+
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcc
Confidence            4689999999999999999997753

>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=96.98  E-value=0.00084  Score=59.29  Aligned_cols=46  Identities=20%  Similarity=0.270  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHhcC------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+..++.|.+.+..            ...+-|-++|++|+|||+||+.+.+..
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999988887631            235678999999999999999999864

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.98  E-value=0.00068  Score=56.83  Aligned_cols=46  Identities=15%  Similarity=0.279  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..+..+.+.+..  ....-|-|+|.+|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            4578999888888887754  333456799999999999999999964

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.98  E-value=0.00055  Score=56.53  Aligned_cols=46  Identities=20%  Similarity=0.182  Sum_probs=34.0

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.++.++.|.+.+..             .-.+-+.++|++|+||||||+.+....
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            4578888888877765421             112239999999999999999999875

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.97  E-value=0.00081  Score=59.33  Aligned_cols=43  Identities=26%  Similarity=0.251  Sum_probs=30.8

Q ss_pred             cccHH--HHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQS--TLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~--~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|..+  ....+........ ...+.|+|++|+||||||+.+++..
T Consensus       109 ~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          109 VGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             CCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            36443  3344444444433 6789999999999999999999976

>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=96.95  E-value=0.0005  Score=52.38  Aligned_cols=24  Identities=17%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||+|+.+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999998865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.93  E-value=0.00056  Score=52.04  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .+|.|.|++|+||||+|+.+..
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            5799999999999999999987

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.93  E-value=0.00053  Score=53.58  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.|+|+.|+||||+++.+....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999998865

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.92  E-value=0.00042  Score=52.58  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|+|+.|+|||||++.+....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            469999999999999999998875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.90  E-value=0.00079  Score=59.22  Aligned_cols=46  Identities=17%  Similarity=0.201  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT----E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|.++.+++|.+.+.    .         ...+-|-++|++|+|||+||+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            347899998888877643    2         146788999999999999999999986

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.89  E-value=0.00057  Score=52.57  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            589999999999999999998764

>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=96.89  E-value=0.0044  Score=51.69  Aligned_cols=26  Identities=31%  Similarity=0.358  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+++|.+|+||||++..+....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998776

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.00084  Score=59.09  Aligned_cols=46  Identities=22%  Similarity=0.305  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|.++.+++|.+.+.-             ...+-|-++|++|+|||+||+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~  239 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI  239 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            3467898888887776532             146789999999999999999999986

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.88  E-value=0.00068  Score=52.10  Aligned_cols=24  Identities=33%  Similarity=0.567  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||+++.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999976

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.87  E-value=0.00084  Score=58.94  Aligned_cols=46  Identities=28%  Similarity=0.333  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|.++.+++|.+.+.-             ...+-|-++|++|+|||+||+++.+..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999888888776532             145678999999999999999999986

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.83  E-value=0.00073  Score=51.84  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|.++|+.|+||||+|+.+....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578899999999999999998875

>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=96.83  E-value=0.0035  Score=49.15  Aligned_cols=45  Identities=22%  Similarity=0.153  Sum_probs=33.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQ  212 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~  212 (243)
                      .-.++.|+|.+|+|||||+..+.. . .    =..++|+.....++...+.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-~----~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-S----GKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-H----CSEEEEEESSCCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-c----CCcEEEEECCCCCCHHHHH
Confidence            456899999999999999999987 3 1    1357777766655555544

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.82  E-value=0.0007  Score=52.77  Aligned_cols=24  Identities=21%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            589999999999999999998753

>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=96.82  E-value=0.0014  Score=56.19  Aligned_cols=45  Identities=20%  Similarity=0.151  Sum_probs=36.6

Q ss_pred             cccccHHHHHHHHHHhc-------------C--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT-------------E--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.+..++.+...+.             .  .....+-++|++|+|||++|+.+.+..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            36899988888888772             1  134578899999999999999999976

>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=96.81  E-value=0.00078  Score=51.75  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|++|+||||+++.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999876

>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=96.81  E-value=0.00086  Score=51.00  Aligned_cols=25  Identities=24%  Similarity=0.468  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|+.|+|||||++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998754

>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=96.80  E-value=0.00087  Score=52.35  Aligned_cols=28  Identities=25%  Similarity=0.494  Sum_probs=24.8

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          160 EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       160 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-.+|+|+|+.|.|||||++.+....
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456899999999999999999998876

>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=96.80  E-value=0.0018  Score=54.36  Aligned_cols=38  Identities=26%  Similarity=0.235  Sum_probs=29.0

Q ss_pred             HHHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          150 TLDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       150 ~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+..++...  ....+-|+|++|+||||||+.+++..
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            344455555443  35678999999999999999999976

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.79  E-value=0.00081  Score=52.20  Aligned_cols=23  Identities=26%  Similarity=0.554  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|.|+.|+||||+++.+....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999876

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.79  E-value=0.0017  Score=55.50  Aligned_cols=43  Identities=26%  Similarity=0.260  Sum_probs=32.3

Q ss_pred             cccHHHHHHHHHHhc----CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLT----EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+.-.+.+++.+.    .+....|.|+|++|+||||+++.+....
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            444555666666653    3456779999999999999999888764

>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=96.79  E-value=0.00085  Score=51.74  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+++|+|+.|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.78  E-value=0.00082  Score=52.51  Aligned_cols=27  Identities=33%  Similarity=0.506  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.+|+|+|+.|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            346799999999999999999998764

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.78  E-value=0.00088  Score=58.28  Aligned_cols=46  Identities=22%  Similarity=0.207  Sum_probs=36.9

Q ss_pred             CcccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|.++.+++|.+.+.-             ...+-|-++|++|+|||.||+++.+..
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~  206 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT  206 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh
Confidence            3477899888888776532             145678899999999999999999986

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.78  E-value=0.017  Score=50.75  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.++|.+|+||||++..+....
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999999876

>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=96.78  E-value=0.0008  Score=51.89  Aligned_cols=23  Identities=39%  Similarity=0.561  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|+|+.|+|||||++.+....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998875

>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=96.78  E-value=0.00099  Score=51.28  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+++.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998865

>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=96.78  E-value=0.0014  Score=54.58  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|..|+||||||+.+....
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57799999999999999999998876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.77  E-value=0.00088  Score=50.64  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.|.|+.|+||||+++.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999999876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.77  E-value=0.00066  Score=53.01  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||||+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>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=96.76  E-value=0.00088  Score=53.11  Aligned_cols=24  Identities=25%  Similarity=0.526  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|+|+.|+||||+++.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.75  E-value=0.0009  Score=56.41  Aligned_cols=44  Identities=20%  Similarity=0.326  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..++.+...+...+  -+-++|.+|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~--~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGG--HILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcCC--eEEEECCCCCcHHHHHHHHHHHh
Confidence            457899999988888877643  57789999999999999998865

>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=96.74  E-value=0.0018  Score=55.68  Aligned_cols=46  Identities=17%  Similarity=0.167  Sum_probs=36.1

Q ss_pred             CcccccHHHHHHHHHHhcC------------------------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------------------------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------------------------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.|...+..                              .....+-++|++|+||||||+.+.+..
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4578998888888776620                              123468899999999999999999875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.73  E-value=0.00089  Score=52.18  Aligned_cols=25  Identities=32%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|+.|+|||||++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3589999999999999999998754

>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=96.73  E-value=0.00088  Score=52.27  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999977

>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=96.73  E-value=0.0016  Score=52.76  Aligned_cols=46  Identities=24%  Similarity=0.213  Sum_probs=33.0

Q ss_pred             CcccccHHHHHHHHHHhc---CC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT---EE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+....++.++..   ..         -.+-+.|+|++|+|||||++.+....
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            457888876665554432   10         11238999999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.73  E-value=0.001  Score=52.15  Aligned_cols=26  Identities=27%  Similarity=0.416  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|..|+|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998865

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.73  E-value=0.0008  Score=51.32  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      -.+++|+|+.|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999644

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.71  E-value=0.0011  Score=50.93  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998865

>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=96.71  E-value=0.001  Score=53.69  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|+.|+|||||++.+....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999654

>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=96.71  E-value=0.00089  Score=51.20  Aligned_cols=25  Identities=36%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+++.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998765

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.69  E-value=0.0011  Score=54.00  Aligned_cols=24  Identities=25%  Similarity=0.156  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|+|+.|+||||||+.+....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.69  E-value=0.0013  Score=58.06  Aligned_cols=45  Identities=22%  Similarity=0.320  Sum_probs=37.0

Q ss_pred             cccccHHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT----E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.++.+++|.+.+.    .         ...+-|-++|++|+|||+||+++.+..
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            47789988888877642    1         256788899999999999999999976

>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=96.69  E-value=0.014  Score=51.31  Aligned_cols=26  Identities=31%  Similarity=0.484  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|.+|+||||++..+....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            36899999999999999999998876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.68  E-value=0.0011  Score=51.09  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>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=96.68  E-value=0.0013  Score=51.12  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +..+|+|+|+.|+||||+++.+..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.67  E-value=0.0009  Score=50.98  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998876

>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=96.66  E-value=0.00087  Score=56.67  Aligned_cols=46  Identities=22%  Similarity=0.271  Sum_probs=34.2

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.+.....+...+......-+-|+|.+|+|||+||+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            3478998866655444443333348899999999999999999875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.66  E-value=0.0013  Score=50.41  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.+.|+.|+||||+++.+....
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998765

>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=96.65  E-value=0.0011  Score=52.24  Aligned_cols=26  Identities=27%  Similarity=0.263  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            35689999999999999999998865

>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=96.64  E-value=0.0011  Score=51.84  Aligned_cols=26  Identities=31%  Similarity=0.533  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|+|+|+.|+|||||++.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998753

>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=96.64  E-value=0.0012  Score=51.69  Aligned_cols=22  Identities=45%  Similarity=0.560  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .+|+|+|+.|+||||+++.+..
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

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.64  E-value=0.0017  Score=52.77  Aligned_cols=41  Identities=34%  Similarity=0.425  Sum_probs=30.0

Q ss_pred             cHHHHHHHHHHhcCC-----CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTEE-----PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++...+.++..+..+     ...+|.++|++|+||||+|+.+....
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           11 FKHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             HHHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            344445555444432     46789999999999999999998865

>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=96.64  E-value=0.0011  Score=55.80  Aligned_cols=27  Identities=26%  Similarity=0.571  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.+||+|.|-|||||||.+-.+.--.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aL   72 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAF   72 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHH
Confidence            468999999999999999998887765

>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=96.63  E-value=0.0017  Score=58.01  Aligned_cols=45  Identities=22%  Similarity=0.284  Sum_probs=37.2

Q ss_pred             cccccHHHHHHHHHHhcC-------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTE-------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.+..++.|.+++..             ....-+-|+|.+|+|||+||+.+.+..
T Consensus       205 ~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             GCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            478999999888887742             234568899999999999999998865

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.63  E-value=0.0013  Score=51.26  Aligned_cols=24  Identities=21%  Similarity=0.483  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999976

>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=96.63  E-value=0.0013  Score=53.33  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|.|+.|+||||+|+.+....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.63  E-value=0.00095  Score=52.29  Aligned_cols=25  Identities=32%  Similarity=0.538  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|+.|+|||||++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4689999999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.63  E-value=0.0014  Score=50.41  Aligned_cols=26  Identities=35%  Similarity=0.465  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+|.|.|++|+||||+++.+....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998876

>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=96.63  E-value=0.0012  Score=50.77  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...|.|+|+.|+||||+++.+.+.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999886

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.63  E-value=0.0014  Score=50.98  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.|.|+.|+||||+++.+.+..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.62  E-value=0.0016  Score=58.36  Aligned_cols=44  Identities=14%  Similarity=0.136  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..++.+...+..+.  -+-++|++|+|||+||+.+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHH
Confidence            357899998888888776653  57799999999999999999865

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.61  E-value=0.0013  Score=50.92  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.61  E-value=0.0023  Score=53.09  Aligned_cols=26  Identities=31%  Similarity=0.275  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.61  E-value=0.0021  Score=52.79  Aligned_cols=46  Identities=24%  Similarity=0.213  Sum_probs=33.5

Q ss_pred             CcccccHHHHHHHHHHhc---CC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT---EE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++..+++.++..   ..         -.+-+.|+|+.|+|||||++.+....
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            457898877666655442   10         11238999999999999999999876

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.60  E-value=0.0016  Score=54.23  Aligned_cols=26  Identities=23%  Similarity=0.256  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+-++|++|+|||+||+.+.+..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35678899999999999999999986

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.59  E-value=0.0015  Score=50.20  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998875

>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=96.59  E-value=0.001  Score=51.05  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            368999999999999999998875

>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=96.59  E-value=0.0023  Score=56.66  Aligned_cols=46  Identities=24%  Similarity=0.276  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHH---hcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRC---LTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~---L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++.++.+..+   +...  ..+-+-++|++|+|||+||+.+.+..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            5689999887765444   3333  33568899999999999999999987

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.59  E-value=0.001  Score=52.03  Aligned_cols=24  Identities=38%  Similarity=0.494  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.58  E-value=0.0018  Score=56.67  Aligned_cols=45  Identities=27%  Similarity=0.369  Sum_probs=36.4

Q ss_pred             cccccHHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT----E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.++.+++|.+.+.    .         ...+-|-++|++|.|||.||+++.+..
T Consensus       183 DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             ecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            46789988888777553    2         146789999999999999999999986

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.55  E-value=0.0016  Score=50.12  Aligned_cols=23  Identities=26%  Similarity=0.574  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.54  E-value=0.0012  Score=49.90  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998875

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.54  E-value=0.02  Score=50.30  Aligned_cols=26  Identities=31%  Similarity=0.324  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|.++|.+|+||||++..+....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36899999999999999999998876

>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=96.53  E-value=0.0077  Score=51.55  Aligned_cols=67  Identities=18%  Similarity=0.138  Sum_probs=44.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----------CCHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----------SSFHEKAQEI  231 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----------~~~~~~~~~l  231 (243)
                      .-+++.|.|.+|+|||||+.++.... ....  ..++|+.....++..     .+++++.          .+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~-~~~g--g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEA-QKMG--GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HhcC--CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            45799999999999999999999875 2221  246788777666654     3444443          3455555555


Q ss_pred             HHHhh
Q 038742          232 FKTMR  236 (243)
Q Consensus       232 ~~~L~  236 (243)
                      ...++
T Consensus       132 ~~l~~  136 (356)
T 3hr8_A          132 DELVR  136 (356)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            55544

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.53  E-value=0.0017  Score=48.88  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999875

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.52  E-value=0.0016  Score=50.68  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+|+.+....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998865

>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=96.52  E-value=0.005  Score=49.01  Aligned_cols=49  Identities=12%  Similarity=0.119  Sum_probs=34.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC----CCCEEEEEEecCcccHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN----NFDFVIWEVVSRDLQLEKM  211 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i  211 (243)
                      .-.++.|+|.+|+|||||+..+.... ....    .-..++|+.....++...+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            45689999999999999999998853 1111    1256788877665454433

>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=96.52  E-value=0.0018  Score=52.91  Aligned_cols=25  Identities=28%  Similarity=0.541  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999863

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.51  E-value=0.0012  Score=50.48  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=18.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999998765

>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=96.51  E-value=0.0015  Score=51.31  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999997653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.51  E-value=0.0015  Score=52.68  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+|+|.|..|+|||||++.+....
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998754

>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=96.50  E-value=0.0026  Score=56.59  Aligned_cols=46  Identities=20%  Similarity=0.213  Sum_probs=34.8

Q ss_pred             CcccccHHHHHHHHHHhc---CC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT---EE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++.++++.+.+.   ..         ..+-|.++|++|+||||||+.+.+..
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~   73 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA   73 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            458899887766666542   21         13357899999999999999999976

>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=96.49  E-value=0.0015  Score=54.97  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|+|+|..|+|||||++.+..-.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhc
Confidence            46799999999999999999998875

>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=96.49  E-value=0.0067  Score=47.82  Aligned_cols=45  Identities=22%  Similarity=0.259  Sum_probs=30.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC---C-CCCEEEEEEecCccc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS---N-NFDFVIWEVVSRDLQ  207 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~---~-~F~~~~wv~vs~~~~  207 (243)
                      .-.+++|+|+.|+|||||++.+.... ...   . .-...+|+.-...+.
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~-~~~~~~g~~~~~~i~~~~~~~~~   72 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFR   72 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCEEEEEECCCCCC
Confidence            45699999999999999999998743 111   1 124567776544333

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=96.49  E-value=0.0081  Score=46.93  Aligned_cols=74  Identities=16%  Similarity=0.165  Sum_probs=43.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----------CCHHHHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----------SSFHEKAQEIFKT  234 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----------~~~~~~~~~l~~~  234 (243)
                      .|+|=|.-|+||||.++.+.+.. +..+ .+ ++...-+......+..++++..-..          .+..+....+...
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L-~~~g-~~-v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~   78 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL-EKRG-KK-VILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQY   78 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-HHTT-CC-EEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-HHCC-Cc-EEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            47788999999999999999987 4332 23 3333333333344555555443222          2233445566666


Q ss_pred             hhcCceE
Q 038742          235 MRNTKFV  241 (243)
Q Consensus       235 L~~kr~L  241 (243)
                      |...+.+
T Consensus        79 L~~g~~V   85 (197)
T 3hjn_A           79 LSEGYAV   85 (197)
T ss_dssp             HTTTCEE
T ss_pred             HHCCCeE
Confidence            7655443

>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=96.48  E-value=0.0011  Score=51.50  Aligned_cols=24  Identities=29%  Similarity=0.530  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|+|+.|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            457899999999999999998764

>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=96.46  E-value=0.0078  Score=50.70  Aligned_cols=57  Identities=18%  Similarity=0.246  Sum_probs=40.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC----CCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN----NFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .-.++.|+|.+|+||||||..+.... ....    .=..++|++....+++..+.. +++.++
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~-~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g  166 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNV-QLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALG  166 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTT
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhC
Confidence            45689999999999999999998764 1110    024688999888777776653 344443

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.46  E-value=0.0018  Score=52.67  Aligned_cols=24  Identities=25%  Similarity=0.439  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .-.+|+|+|+.|+|||||++.+..
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~   49 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAE   49 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999984

>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=96.45  E-value=0.0093  Score=50.92  Aligned_cols=45  Identities=16%  Similarity=0.170  Sum_probs=34.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  209 (243)
                      .-+++.|.|.+|+||||||.++.... ....  ..++|++....++..
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~-~~~g--~~vlyi~~E~~~~~~  104 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANA-QAAG--GIAAFIDAEHALDPE  104 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HhCC--CeEEEEECCCCcCHH
Confidence            45689999999999999999998765 2121  357888887777653

>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=96.45  E-value=0.0021  Score=50.19  Aligned_cols=26  Identities=27%  Similarity=0.510  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|.|+.|+||||+++.+....
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999998864

>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=96.44  E-value=0.01  Score=46.78  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|.|.|++|+||||.|+.+..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999999986

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.44  E-value=0.0019  Score=50.51  Aligned_cols=32  Identities=19%  Similarity=0.294  Sum_probs=25.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCE
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDF  196 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~  196 (243)
                      ..+|.|.|+.|+||||+++.+.... .. .+++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l-~~-~~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL-KN-NNVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH-HH-TTCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH-HH-cCCcE
Confidence            4689999999999999999999875 32 24554

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.43  E-value=0.036  Score=49.61  Aligned_cols=26  Identities=23%  Similarity=0.441  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|.+|+||||++..+....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999998765

>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=96.43  E-value=0.0021  Score=50.32  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999876

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.42  E-value=0.0023  Score=50.92  Aligned_cols=26  Identities=23%  Similarity=0.313  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+||-|.|++|+||||.|+.+.++.
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999999987

>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=96.42  E-value=0.0021  Score=49.09  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+++|+|..|+|||||+..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999999875

>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=96.41  E-value=0.00095  Score=52.34  Aligned_cols=24  Identities=29%  Similarity=0.731  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|.|..|+||||+++.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            378999999999999999998875

>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=96.41  E-value=0.0022  Score=48.46  Aligned_cols=27  Identities=37%  Similarity=0.365  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.+++++|+.|.|||||++.+..-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            345699999999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.40  E-value=0.0016  Score=51.81  Aligned_cols=25  Identities=36%  Similarity=0.554  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998754

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.38  E-value=0.0022  Score=50.41  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998765

>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=96.37  E-value=0.0022  Score=50.27  Aligned_cols=26  Identities=19%  Similarity=0.266  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998765

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.36  E-value=0.0024  Score=50.48  Aligned_cols=25  Identities=28%  Similarity=0.294  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|++|+||||+|+.+....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998876

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.36  E-value=0.0043  Score=53.02  Aligned_cols=37  Identities=24%  Similarity=0.383  Sum_probs=28.6

Q ss_pred             HHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLT--EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++..+.  ..+..+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            444555554  3467899999999999999999987654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.34  E-value=0.0022  Score=50.97  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|+.|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999998865

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.33  E-value=0.0019  Score=50.29  Aligned_cols=23  Identities=43%  Similarity=0.538  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|+|+.|+|||||++.+....
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68999999999999999998865

>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=96.32  E-value=0.011  Score=50.72  Aligned_cols=45  Identities=22%  Similarity=0.140  Sum_probs=34.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  209 (243)
                      .-+++-|.|.+|+||||||.++.... ....  ..++|+.....++..
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~-~~~g--~~vlyid~E~s~~~~  106 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA-QREG--KTCAFIDAEHALDPI  106 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHCC--CeEEEEeCCCCccHH
Confidence            45689999999999999999988765 2222  357888887777644

>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=96.32  E-value=0.0023  Score=49.68  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999998864

>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=96.32  E-value=0.0026  Score=48.51  Aligned_cols=25  Identities=32%  Similarity=0.429  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|.|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999998864

>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=96.31  E-value=0.0028  Score=49.83  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+|.|.|+.|+||||+++.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999998865

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.30  E-value=0.0025  Score=50.14  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.29  E-value=0.0042  Score=52.41  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|+|.|..|+|||||++.+..-.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46699999999999999999998765

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.28  E-value=0.016  Score=48.57  Aligned_cols=52  Identities=12%  Similarity=0.144  Sum_probs=36.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKK  218 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~  218 (243)
                      .-.++-|.|.+|+||||||..+..+. -...  ..++|++..  .+...+...++..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~-a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNM-SDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            44689999999999999999998765 3222  567777754  4555555555543

>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=96.27  E-value=0.0023  Score=53.59  Aligned_cols=26  Identities=31%  Similarity=0.523  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|+.|+|||||++.+....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            35799999999999999999998765

>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=96.27  E-value=0.0025  Score=50.76  Aligned_cols=25  Identities=16%  Similarity=0.248  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|+|||||++.+....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            4689999999999999999998865

>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=96.25  E-value=0.0024  Score=51.43  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999998643

>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=96.25  E-value=0.0047  Score=52.32  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+++|+|+.|+|||||++.+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998876

>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=96.24  E-value=0.0033  Score=55.37  Aligned_cols=46  Identities=20%  Similarity=0.209  Sum_probs=36.4

Q ss_pred             CcccccHHHHHHHHHHhcC--------------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE--------------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++.+...+..              ...+-|-++|++|+||||+|+.+....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4588999888888766622              124568899999999999999999876

>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=96.24  E-value=0.013  Score=50.33  Aligned_cols=45  Identities=20%  Similarity=0.104  Sum_probs=34.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  209 (243)
                      .-.++-|.|.+|+||||||.++.... ....  ..++|++....++..
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~-~~~g--~~vlyi~~E~s~~~~  117 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV  117 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH-HHCC--CeEEEEECCCChhHH
Confidence            34588889999999999999888765 2222  357899988777654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.24  E-value=0.0022  Score=50.66  Aligned_cols=24  Identities=33%  Similarity=0.153  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -.+++|+|+.|.|||||++.+..-
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999999864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.23  E-value=0.0023  Score=51.16  Aligned_cols=26  Identities=31%  Similarity=0.312  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998643

>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=96.23  E-value=0.003  Score=49.80  Aligned_cols=23  Identities=35%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ..+|+|.|+.|+||||+++.+..
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            35899999999999999999965

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.21  E-value=0.0025  Score=50.42  Aligned_cols=25  Identities=24%  Similarity=0.201  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|+.|+||||+++.+....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999999876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.21  E-value=0.0027  Score=51.32  Aligned_cols=25  Identities=28%  Similarity=0.336  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      . .+++|+|+.|.|||||.+.+..-.
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            6 899999999999999999998653

>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=96.19  E-value=0.031  Score=46.54  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+++|.+|+||||++..+....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~  122 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY  122 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998776

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.19  E-value=0.0031  Score=52.80  Aligned_cols=25  Identities=28%  Similarity=0.490  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|+|||||++.+....
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999998876

>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=96.18  E-value=0.0076  Score=48.23  Aligned_cols=26  Identities=23%  Similarity=0.485  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-..|.|.|+.|+||||+++.+.+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999987

>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=96.18  E-value=0.0034  Score=48.84  Aligned_cols=23  Identities=22%  Similarity=0.492  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|.|+.|+||||+++.+....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998865

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.17  E-value=0.0018  Score=51.69  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=16.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      -.+++|+|+.|+|||||++.+.
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            4689999999999999999998

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.17  E-value=0.0059  Score=54.69  Aligned_cols=46  Identities=24%  Similarity=0.215  Sum_probs=34.4

Q ss_pred             CcccccHHHHHHHHHHh---cCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCL---TEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++.+.++.++.   ...         -.+-+.|+|++|+||||||+.+.+..
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            56899987766665544   221         12348999999999999999999876

>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=96.17  E-value=0.003  Score=52.21  Aligned_cols=24  Identities=29%  Similarity=0.678  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999973

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.17  E-value=0.0044  Score=51.96  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhcCC---CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTEE---PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+.+.+++..-   ....+-++|.+|+|||+||+.+++..
T Consensus       135 ~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          135 EAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3444555566542   24678899999999999999999976

>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=96.16  E-value=0.0039  Score=50.34  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999998765

>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=96.15  E-value=0.003  Score=52.95  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|..|+|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998865

>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=96.15  E-value=0.0054  Score=54.72  Aligned_cols=26  Identities=31%  Similarity=0.529  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+|+|+|..|+|||||++.+....
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            45799999999999999999998865

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.14  E-value=0.0033  Score=48.49  Aligned_cols=25  Identities=36%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.|+|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            5689999999999999999998764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.13  E-value=0.0018  Score=49.58  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|..|+|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998876

>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=96.12  E-value=0.003  Score=50.90  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

>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=96.11  E-value=0.014  Score=49.03  Aligned_cols=57  Identities=14%  Similarity=0.255  Sum_probs=40.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC---------CC-----CEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN---------NF-----DFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~---------~F-----~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .-.++-|.|.+|+||||||..+.... ....         ..     ..++|++....+++..+.. ++..++
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~-~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g  167 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL-QNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAG  167 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT-TCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcC
Confidence            45789999999999999999988753 1110         11     4678999888877776654 344443

>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=96.11  E-value=0.0033  Score=51.11  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|+.|.|||||++.+..-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999884

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.11  E-value=0.0029  Score=51.51  Aligned_cols=25  Identities=36%  Similarity=0.316  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|+|+|+.|+||||+++.+....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999998865

>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=96.11  E-value=0.0029  Score=51.08  Aligned_cols=26  Identities=42%  Similarity=0.473  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.10  E-value=0.0031  Score=51.67  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998653

>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=96.09  E-value=0.003  Score=51.58  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999997653

>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=96.09  E-value=0.0039  Score=47.83  Aligned_cols=25  Identities=28%  Similarity=0.546  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+++|+|..|+|||||++.+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998875

>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=96.08  E-value=0.0032  Score=52.03  Aligned_cols=25  Identities=32%  Similarity=0.493  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-.+++|+|+.|.|||||++.+..-
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            3468999999999999999999764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.08  E-value=0.0038  Score=49.31  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.|.|++|+||||+|+.+....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>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=96.08  E-value=0.0096  Score=49.23  Aligned_cols=53  Identities=17%  Similarity=0.179  Sum_probs=34.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKK  218 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~  218 (243)
                      .-.+++|+|.+|+|||||++.+.... ..... ..++|+...  .+...+.+.++..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~-~~~~G-~~v~~~~~e--~~~~~~~~r~~~~   86 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW-GTAMG-KKVGLAMLE--ESVEETAEDLIGL   86 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH-HHTSC-CCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-HHHcC-CeEEEEeCc--CCHHHHHHHHHHH
Confidence            45689999999999999999998876 32211 135555543  3444555544443

>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=96.08  E-value=0.0039  Score=49.06  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>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=96.06  E-value=0.0039  Score=50.44  Aligned_cols=26  Identities=35%  Similarity=0.410  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++.+.|.||+|||||+..+....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            36788899999999999999998765

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.06  E-value=0.004  Score=49.45  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998875

>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=96.05  E-value=0.0032  Score=50.44  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

>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=96.05  E-value=0.0036  Score=51.43  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|+.|.|||||++.+..-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999884

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.05  E-value=0.0043  Score=45.77  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-|.++|.+|+|||||++.+.+.
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            46899999999999999999875

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.04  E-value=0.0042  Score=46.52  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..|+|+|.+|+|||||.+.+...
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            56899999999999999999864

>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=96.04  E-value=0.0035  Score=50.70  Aligned_cols=26  Identities=27%  Similarity=0.607  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998653

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.04  E-value=0.0054  Score=56.22  Aligned_cols=43  Identities=21%  Similarity=0.291  Sum_probs=36.7

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.+..++.+...+...  ..+.|+|+.|+||||||+.+....
T Consensus        42 ~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           42 QVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             eEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            4789988888877777665  478999999999999999999865

>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=96.04  E-value=0.0042  Score=50.00  Aligned_cols=25  Identities=20%  Similarity=0.432  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|.|+.|+||||+++.+....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998765

>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=96.03  E-value=0.0032  Score=51.59  Aligned_cols=26  Identities=31%  Similarity=0.299  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            45689999999999999999998753

>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=96.03  E-value=0.0045  Score=56.07  Aligned_cols=46  Identities=30%  Similarity=0.386  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++..+.+.+.+.-      .+..++.++|++|+||||||+.+....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3478888877776554421      246689999999999999999999876

>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=96.03  E-value=0.0027  Score=50.42  Aligned_cols=26  Identities=42%  Similarity=0.694  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998754

>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=96.02  E-value=0.0035  Score=51.46  Aligned_cols=26  Identities=31%  Similarity=0.493  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999998643

>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=96.02  E-value=0.043  Score=48.06  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+++|.+|+||||++..+....
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999999876

>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=96.01  E-value=0.015  Score=49.32  Aligned_cols=56  Identities=16%  Similarity=0.215  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC----CCCEEEEEEecCcccHHHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN----NFDFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      .-.++.|+|.+|+||||||..+.... ....    .=..++|++....+++..+.. ++..+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~  180 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRF  180 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHc
Confidence            45689999999999999999998863 1111    124688999888777766543 33443

>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=96.01  E-value=0.0035  Score=50.89  Aligned_cols=26  Identities=31%  Similarity=0.546  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999997753

>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=96.01  E-value=0.0034  Score=51.24  Aligned_cols=26  Identities=42%  Similarity=0.500  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998753

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=96.00  E-value=0.0043  Score=48.01  Aligned_cols=24  Identities=38%  Similarity=0.499  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...|+|+|..|+|||||.+.+...
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            356899999999999999999876

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.96  E-value=0.0037  Score=51.13  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.96  E-value=0.0037  Score=51.47  Aligned_cols=26  Identities=31%  Similarity=0.548  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

>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=95.96  E-value=0.019  Score=48.00  Aligned_cols=73  Identities=8%  Similarity=0.044  Sum_probs=46.2

Q ss_pred             ccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccC-CCCCEEEEEEecC-cccHHHHHHHHHHHhc
Q 038742          146 GFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTS-NNFDFVIWEVVSR-DLQLEKMQESIAKKIA  220 (243)
Q Consensus       146 G~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~-~~F~~~~wv~vs~-~~~~~~i~~~I~~~l~  220 (243)
                      |-++.++.|.+.+..++.+..-++|++|+||||+|..+.+...... .|.+. .++..+. ...+.. .+++.+.+.
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~-ir~li~~~~   75 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDD-IRTIKDFLN   75 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHH-HHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHH-HHHHHHHHh
Confidence            3456677788888777778899999999999999999987531112 24444 4555443 344433 344555543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.96  E-value=0.0049  Score=52.40  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|.|+.|+||||||..+....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.96  E-value=0.0042  Score=48.97  Aligned_cols=26  Identities=23%  Similarity=0.175  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.++.|+|.+|+|||||++.+....
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.95  E-value=0.0046  Score=53.04  Aligned_cols=25  Identities=28%  Similarity=0.490  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+++|+|..|+|||||++.+....
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            5799999999999999999998876

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.95  E-value=0.0048  Score=49.27  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|+.|+||||+|+.+.+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.95  E-value=0.0038  Score=51.23  Aligned_cols=26  Identities=27%  Similarity=0.304  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999998753

>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=95.94  E-value=0.019  Score=49.98  Aligned_cols=57  Identities=16%  Similarity=0.177  Sum_probs=37.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHHHHHHHHHhc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKMQESIAKKIA  220 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~I~~~l~  220 (243)
                      .-.++.|+|.+|+|||||+..+.-.. ...    ..-..++|+.-...++...+. .+++.++
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~-~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~g  237 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFG  237 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHh-ccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcC
Confidence            45699999999999999999775332 111    123457888877666655543 3555554

>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=95.94  E-value=0.0038  Score=50.72  Aligned_cols=26  Identities=35%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34589999999999999999998754

>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=95.94  E-value=0.005  Score=51.62  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|+|+|.+|+||||++..+....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            35799999999999999999998876

>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=95.93  E-value=0.0034  Score=47.95  Aligned_cols=21  Identities=43%  Similarity=0.521  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      -|+|+|.+|+|||||++.+..
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            588999999999999999876

>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=95.93  E-value=0.0043  Score=45.73  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            48899999999999999998764

>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=95.92  E-value=0.0084  Score=45.66  Aligned_cols=35  Identities=34%  Similarity=0.562  Sum_probs=27.6

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...+.+ +...+...|.|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 45556778999999999999999999854

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.92  E-value=0.0039  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.431  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.90  E-value=0.0056  Score=46.56  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...|+++|.+|+|||||.+.+.+.
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            357999999999999999999874

>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=95.90  E-value=0.006  Score=46.11  Aligned_cols=36  Identities=22%  Similarity=0.314  Sum_probs=27.6

Q ss_pred             HHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          151 LDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       151 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...+.+.+.. .+...|.|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A            5 FSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             HHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            3445555555 56678999999999999999998753

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.90  E-value=0.0069  Score=47.77  Aligned_cols=38  Identities=13%  Similarity=0.066  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCC-CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          150 TLDRVWRCLTEE-PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       150 ~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+..+..++..- +-+-+-|+|++|+||||+|..+.+..
T Consensus        44 f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           44 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            355555555542 23469999999999999999998875

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.89  E-value=0.0041  Score=51.45  Aligned_cols=26  Identities=38%  Similarity=0.350  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999998754

>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=95.88  E-value=0.0046  Score=45.87  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.88  E-value=0.0055  Score=50.13  Aligned_cols=27  Identities=22%  Similarity=0.455  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.+++|+|+.|+|||||++.+....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            445799999999999999999987754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.87  E-value=0.0049  Score=50.68  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|+|..|+|||||.+.+..-.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999999764

>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=95.86  E-value=0.025  Score=44.73  Aligned_cols=52  Identities=15%  Similarity=0.157  Sum_probs=33.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      -..|.|-|..|+||||+++.+.+.. .. ..+.... ..-+......+.+++++.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l-~~-~~~~v~~-~~~p~~~~~g~~i~~~l~   57 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL-RE-RGIEVQL-TREPGGTPLAERIRELLL   57 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH-HT-TTCCEEE-EESSCSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH-HH-cCCCccc-ccCCCCCHHHHHHHHHHh
Confidence            3579999999999999999999987 32 3355432 222222223344555554

>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=95.86  E-value=0.02  Score=50.55  Aligned_cols=40  Identities=25%  Similarity=0.380  Sum_probs=30.9

Q ss_pred             cHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+..+...+...+ ..+.|.|.+|+||||++..+....
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3455566666665543 389999999999999999999886

>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=95.84  E-value=0.035  Score=46.75  Aligned_cols=52  Identities=10%  Similarity=0.068  Sum_probs=37.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      .++-|.|.+|+|||||+.++.... .....=..++|+...+++++.     -+++++.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~-~~~g~g~~vlyId~E~s~~~~-----ra~~lGv   80 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSY-MRQYPDAVCLFYDSEFGITPA-----YLRSMGV   80 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHH-HHHCTTCEEEEEESSCCCCHH-----HHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH-HhcCCCceEEEEeccchhhHH-----HHHHhCC
Confidence            378999999999999998887765 211112467899888887764     2666665

>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=95.83  E-value=0.013  Score=50.05  Aligned_cols=47  Identities=23%  Similarity=0.270  Sum_probs=32.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCC----CEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNF----DFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F----~~~~wv~vs~~~~~~  209 (243)
                      .-.++.|+|..|+|||||+..+.... ......    ..++|+.-...+...
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~~~~~  180 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPE  180 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCCCCHH
Confidence            56799999999999999999998764 111011    245788765554433

>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=95.82  E-value=0.0057  Score=50.66  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.78  E-value=0.0051  Score=50.55  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.++.|+|.+|+|||||+..+....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>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=95.78  E-value=0.0053  Score=46.83  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.|.++|.+|+|||||++.+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998764

>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=95.78  E-value=0.0055  Score=45.29  Aligned_cols=24  Identities=38%  Similarity=0.390  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-|.|+|.+|+|||||.+.+.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999998754

>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=95.77  E-value=0.0063  Score=47.34  Aligned_cols=40  Identities=20%  Similarity=0.106  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          148 QSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       148 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...+.+.++....+.--|.|+|.+|+|||||.+.+.+..
T Consensus        15 ~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           15 VPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ---------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3334444444444556678999999999999999888653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.77  E-value=0.0064  Score=51.32  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|+|+.|+||||||+.+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998875

>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=95.77  E-value=0.0055  Score=51.33  Aligned_cols=26  Identities=15%  Similarity=0.180  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+-.+++|+|+.|.|||||++.+..-
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhh
Confidence            35678999999999999999999865

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.76  E-value=0.0066  Score=51.21  Aligned_cols=26  Identities=38%  Similarity=0.604  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+|.+|+||||++..+....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999998765

>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=95.75  E-value=0.0043  Score=58.59  Aligned_cols=45  Identities=22%  Similarity=0.307  Sum_probs=35.0

Q ss_pred             cccccHHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLT----E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.++.+++|.+++.    .         ...+-|-++|++|+|||+||+.+.+..
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el  262 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            36688877777766542    2         145678999999999999999999976

>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=95.74  E-value=0.0049  Score=46.14  Aligned_cols=25  Identities=36%  Similarity=0.331  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999997654

>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=95.72  E-value=0.0094  Score=45.32  Aligned_cols=26  Identities=35%  Similarity=0.449  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .....|.|+|.+|+|||||.+.+.+.
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            35678999999999999999999865

>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=95.72  E-value=0.0064  Score=45.04  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58899999999999999998753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.72  E-value=0.0058  Score=46.74  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....|.|+|.+|+|||||.+.+.+..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998764

>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=95.71  E-value=0.0062  Score=46.48  Aligned_cols=25  Identities=32%  Similarity=0.141  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhc
Confidence            4568999999999999998887653

>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=95.71  E-value=0.0045  Score=49.44  Aligned_cols=25  Identities=32%  Similarity=0.284  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-.+|+|.|..|+|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3579999999999999999998774

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.70  E-value=0.0055  Score=50.21  Aligned_cols=23  Identities=43%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999753

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.69  E-value=0.013  Score=55.05  Aligned_cols=46  Identities=28%  Similarity=0.442  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.+...+...         ....+-++|++|+|||+||+.+.+..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45889999888888877531         23478999999999999999999875

>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=95.68  E-value=0.0061  Score=46.11  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..|+|+|.+|+|||||.+.+...
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            46899999999999999999875

>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=95.67  E-value=0.0064  Score=44.88  Aligned_cols=24  Identities=38%  Similarity=0.425  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|.+|+|||||.+.+.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999988653

>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=95.66  E-value=0.013  Score=51.35  Aligned_cols=33  Identities=30%  Similarity=0.381  Sum_probs=26.5

Q ss_pred             HHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          154 VWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       154 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++ ....-.+++|+|+.|.|||||++.+....
T Consensus       159 L~~l-~~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          159 FRRL-IKRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             HHHH-HTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHH-HHhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            4444 34556799999999999999999998865

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.66  E-value=0.0063  Score=45.23  Aligned_cols=23  Identities=35%  Similarity=0.587  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|.|+|.+|+|||||.+.+.+.
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            35889999999999999999874

>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=95.66  E-value=0.0078  Score=50.78  Aligned_cols=24  Identities=33%  Similarity=0.592  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -+++-|+|++|+||||||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            456789999999999999999875

>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=95.66  E-value=0.0065  Score=45.14  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998764

>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=95.65  E-value=0.0073  Score=50.28  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|+|.+|+||||++..+....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998876

>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=95.65  E-value=0.0066  Score=45.03  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||.+.+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58899999999999999998764

>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=95.65  E-value=0.0073  Score=44.69  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|.+|+|||||.+.+.+..
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.65  E-value=0.0079  Score=48.09  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|+|.|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999988753

>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=95.65  E-value=0.0064  Score=45.23  Aligned_cols=25  Identities=36%  Similarity=0.299  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.64  E-value=0.018  Score=46.08  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -..|.|-|+.|+||||+++.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999987

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.64  E-value=0.0084  Score=48.05  Aligned_cols=25  Identities=20%  Similarity=0.412  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|..|+||||+++.+....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999999875

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.62  E-value=0.004  Score=51.74  Aligned_cols=26  Identities=23%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|.|..|+||||+|+.+.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998864

>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=95.60  E-value=0.0067  Score=46.14  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4468899999999999999998763

>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=95.59  E-value=0.0066  Score=45.02  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||.+.+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            5889999999999999998654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.59  E-value=0.0082  Score=51.23  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..+|+|+|.+|+|||||.+.+...
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            678999999999999999999864

>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=95.59  E-value=0.007  Score=45.48  Aligned_cols=26  Identities=35%  Similarity=0.378  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            35678999999999999999987753

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.58  E-value=0.0072  Score=49.11  Aligned_cols=24  Identities=29%  Similarity=0.578  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|.|-||+||||+|..+....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~l   25 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGL   25 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHH
Confidence            588999999999999999998876

>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=95.58  E-value=0.007  Score=45.46  Aligned_cols=26  Identities=35%  Similarity=0.474  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..-|.|+|..|+|||||.+.+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999998763

>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=95.56  E-value=0.0065  Score=50.52  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999998754

>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=95.56  E-value=0.0074  Score=52.09  Aligned_cols=27  Identities=22%  Similarity=0.073  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.+++|+|+.|.|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            356799999999999999999999864

>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=95.56  E-value=0.03  Score=43.95  Aligned_cols=50  Identities=16%  Similarity=0.358  Sum_probs=32.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      ..|+|=|..|+||||+++.+.+..   ...++.+. ..-+......+.+++++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L---~~~~~v~~-~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL---VKDYDVIM-TREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH---TTTSCEEE-EESSTTCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH---HCCCCEEE-eeCCCCChHHHHHHHHHh
Confidence            468899999999999999999987   33455432 222222234444555543

>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=95.55  E-value=0.0056  Score=53.85  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|+|.+|+||||++..+....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998865

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.55  E-value=0.0085  Score=44.95  Aligned_cols=24  Identities=29%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|.+|+|||||.+.+.+.
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            346889999999999999998765

>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=95.55  E-value=0.0074  Score=45.26  Aligned_cols=25  Identities=36%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998653

>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=95.54  E-value=0.0086  Score=50.32  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|+.|+||||||..+....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3589999999999999999998754

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.54  E-value=0.0087  Score=44.91  Aligned_cols=25  Identities=40%  Similarity=0.441  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|.|+|.+|+|||||.+.+.+.
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999999764

>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=95.53  E-value=0.012  Score=45.49  Aligned_cols=33  Identities=30%  Similarity=0.455  Sum_probs=24.5

Q ss_pred             HHHHh-cCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          154 VWRCL-TEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       154 l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +++.+ ...+...|+++|.+|+|||||.+.+.+.
T Consensus        15 ~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           15 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34444 2334456899999999999999999753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.53  E-value=0.0082  Score=50.93  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|+.|+|||||+..+....
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999998875

>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=95.52  E-value=0.007  Score=50.92  Aligned_cols=25  Identities=48%  Similarity=0.705  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ++.+++|+|+-|.|||||.+.+...
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            4689999999999999999999864

>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=95.52  E-value=0.0075  Score=44.77  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|.+|+|||||.+.+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            458999999999999999998653

>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=95.52  E-value=0.0077  Score=45.64  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|.+|+|||||.+.+.+..
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            358899999999999999998764

>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=95.51  E-value=0.0084  Score=44.43  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999999865

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.50  E-value=0.008  Score=45.05  Aligned_cols=25  Identities=32%  Similarity=0.285  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998764

>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=95.50  E-value=0.0083  Score=52.42  Aligned_cols=27  Identities=26%  Similarity=0.274  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+|.|+|++|+||||+|+.+..+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            357899999999999999999998754

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.49  E-value=0.008  Score=45.96  Aligned_cols=25  Identities=24%  Similarity=0.450  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|.|+|.+|+|||||.+.+.+.
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            4667999999999999999999765

>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=95.49  E-value=0.0098  Score=44.20  Aligned_cols=22  Identities=41%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      --|.|+|.+|+|||||.+.+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4589999999999999999853

>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=95.49  E-value=0.0079  Score=45.98  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|.+|+|||||++.+.+.
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999877665

>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=95.48  E-value=0.0081  Score=45.42  Aligned_cols=25  Identities=32%  Similarity=0.385  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999998763

>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=95.48  E-value=0.019  Score=53.92  Aligned_cols=46  Identities=26%  Similarity=0.439  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.+..++.+...+..         .....+-++|++|+|||+||+.+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578999988888777652         124478999999999999999999875

>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=95.47  E-value=0.0053  Score=51.47  Aligned_cols=26  Identities=31%  Similarity=0.506  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            45689999999999999999997643

>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=95.46  E-value=0.0085  Score=44.59  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568999999999999999997653

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.46  E-value=0.011  Score=51.56  Aligned_cols=24  Identities=25%  Similarity=0.455  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ...+++|+|..|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            466999999999999999999988

>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=95.45  E-value=0.0094  Score=46.59  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....|.|+|.+|+|||||++.+.+..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998764

>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=95.43  E-value=0.0084  Score=46.05  Aligned_cols=25  Identities=36%  Similarity=0.518  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...|+++|.+|+|||||.+.+.+.
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3447899999999999999999874

>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=95.43  E-value=0.0093  Score=49.16  Aligned_cols=25  Identities=24%  Similarity=0.489  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|+|.|-||+||||+|..+....
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~L   26 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHH
Confidence            4689999999999999999998876

>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=95.43  E-value=0.0085  Score=45.83  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            4578999999999999999887653

>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=95.42  E-value=0.0093  Score=45.40  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .+.+|+|..|.|||||+..|+-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4889999999999999999975

>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=95.41  E-value=0.0092  Score=45.30  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+..-|.|+|.+|+|||||.+.+.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcC
Confidence            45678999999999999999999864

>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=95.41  E-value=0.0087  Score=45.33  Aligned_cols=25  Identities=28%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998764

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.40  E-value=0.0098  Score=47.36  Aligned_cols=40  Identities=23%  Similarity=0.150  Sum_probs=27.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      .-.++.|.|.+|+|||||+..+.... ...+  ..++|++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~-~~~~--~~v~~~~~e~   61 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNG-LKMG--EPGIYVALEE   61 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HhcC--CeEEEEEccC
Confidence            34689999999999999988776653 1111  2456665443

>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=95.39  E-value=0.0048  Score=47.95  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..-..|+|+|..|+|||||.+.+...
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34568999999999999999988754

>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=95.38  E-value=0.011  Score=49.59  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.|+|+.|+||||||..+....
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            5689999999999999999998865

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.38  E-value=0.0092  Score=45.43  Aligned_cols=25  Identities=36%  Similarity=0.485  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|+|..|+|||||.+.+.+..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4578999999999999999998763

>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=95.38  E-value=0.0075  Score=45.80  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            47899999999999999988753

>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=95.38  E-value=0.0092  Score=45.31  Aligned_cols=25  Identities=32%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998753

>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=95.38  E-value=0.0092  Score=45.05  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.++|.+|+|||||.+.+.+..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.37  E-value=0.0087  Score=44.93  Aligned_cols=25  Identities=28%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..--|.|+|.+|+|||||.+.+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3557899999999999999999765

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.37  E-value=0.0092  Score=45.65  Aligned_cols=25  Identities=44%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998754

>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=95.37  E-value=0.0092  Score=44.70  Aligned_cols=24  Identities=29%  Similarity=0.257  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|..|+|||||.+.+.+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>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=95.37  E-value=0.0093  Score=45.01  Aligned_cols=25  Identities=36%  Similarity=0.399  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            4568999999999999999998754

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.37  E-value=0.0099  Score=45.71  Aligned_cols=29  Identities=21%  Similarity=0.287  Sum_probs=23.4

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          158 LTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       158 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +...+.--|.|+|.+|+|||||.+.+.+.
T Consensus        24 ~~~~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           24 IFGKKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             TTTTSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             hccCCccEEEEECCCCCCHHHHHHHHHhC
Confidence            34445567999999999999999999654

>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=95.37  E-value=0.0092  Score=51.23  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            45689999999999999999998743

>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=95.35  E-value=0.01  Score=49.51  Aligned_cols=26  Identities=31%  Similarity=0.474  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+|+|.+|+|||||.+.+....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            34689999999999999999998763

>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=95.35  E-value=0.0094  Score=44.98  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|+|.+|+|||||.+.+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998653

>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=95.34  E-value=0.0094  Score=45.92  Aligned_cols=26  Identities=35%  Similarity=0.387  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..-|.|+|.+|+|||||.+.+....
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            35578999999999999999997653

>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=95.33  E-value=0.0097  Score=44.80  Aligned_cols=24  Identities=33%  Similarity=0.307  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|.+|+|||||.+.+.+.
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            346889999999999999998765

>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=95.33  E-value=0.0076  Score=50.30  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|+|..|+|||||.+.++..
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            499999999999999998753

>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=95.32  E-value=0.0096  Score=51.00  Aligned_cols=26  Identities=38%  Similarity=0.437  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34689999999999999999998743

>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=95.32  E-value=0.03  Score=45.07  Aligned_cols=52  Identities=15%  Similarity=0.313  Sum_probs=34.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      -..|.|.|..|+||||+++.+.+.. .. ..+..+....-+......+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l-~~-~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL-QQ-NGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH-HH-TTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-Hh-cCCCeeeeecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999987 43 3455344443332223344455554

>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=95.31  E-value=0.0096  Score=45.96  Aligned_cols=26  Identities=38%  Similarity=0.370  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            35578999999999999999998753

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.31  E-value=0.0069  Score=55.47  Aligned_cols=46  Identities=17%  Similarity=0.164  Sum_probs=31.7

Q ss_pred             CcccccHHHHHHHHHHhcCCCce-----------EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVG-----------IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~-----------vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.+..+..+.-.|.....+           -+-++|.+|+|||+||+.+.+..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            34567766555554444433211           47899999999999999998864

>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=95.31  E-value=0.0098  Score=44.76  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+....
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998753

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.30  E-value=0.011  Score=50.09  Aligned_cols=26  Identities=31%  Similarity=0.484  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+..+++|+|.+|+|||||.+.+...
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999999753

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.30  E-value=0.011  Score=45.28  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            4568999999999999999998764

>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=95.30  E-value=0.011  Score=56.29  Aligned_cols=45  Identities=29%  Similarity=0.460  Sum_probs=36.5

Q ss_pred             cccccHHHHHHHHHHhcCC---------CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEE---------PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.+..++.+...+...         ....+-|+|+.|+|||+||+.+.+..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689998888887776431         23588999999999999999999875

>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=95.30  E-value=0.0074  Score=45.44  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.++|.+|+|||||.+.+.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            468899999999999999998753

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.29  E-value=0.037  Score=43.72  Aligned_cols=52  Identities=17%  Similarity=0.236  Sum_probs=34.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      ..|.|-|..|+||||+++.+.+.. ... .+..+....-+......+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l-~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL-EQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH-HHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH-HHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            478999999999999999999987 433 3433333333333334556666665

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.29  E-value=0.01  Score=50.79  Aligned_cols=26  Identities=42%  Similarity=0.489  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999998643

>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=95.29  E-value=0.011  Score=45.51  Aligned_cols=23  Identities=39%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ..-|.|+|.+|+|||||.+.+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45689999999999999999875

>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=95.28  E-value=0.01  Score=45.64  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..--|.|+|.+|+|||||++.+.+..
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            45578999999999999999998763

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.28  E-value=0.01  Score=45.37  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|.+|+|||||.+.+...
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            446899999999999999999876

>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=95.28  E-value=0.0078  Score=46.52  Aligned_cols=23  Identities=39%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      ....|.|+|.+|+|||||.+.+.
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            35679999999999999999984

>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=95.28  E-value=0.01  Score=44.55  Aligned_cols=25  Identities=40%  Similarity=0.429  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4468999999999999999998754

>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=95.24  E-value=0.01  Score=50.73  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++|+|..|.|||||++.+..-.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999988765

>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=95.22  E-value=0.01  Score=45.43  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568999999999999999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.22  E-value=0.011  Score=45.61  Aligned_cols=26  Identities=31%  Similarity=0.231  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..-|.|+|.+|+|||||++.+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            35678999999999999999998764

>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=95.21  E-value=0.02  Score=47.80  Aligned_cols=33  Identities=30%  Similarity=0.444  Sum_probs=25.9

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.+.+..   .+++++|+.|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~G---~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLEG---FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTTT---CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhccC---cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            4555555543   478999999999999999998 54

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.21  E-value=0.011  Score=45.12  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998764

>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=95.21  E-value=0.0095  Score=45.90  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..-|.++|.+|+|||||.+.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457899999999999999987774

>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=95.20  E-value=0.016  Score=49.54  Aligned_cols=27  Identities=33%  Similarity=0.507  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+-.+++|+|+.|.|||||.+.+....
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            334599999999999999999987654

>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=95.19  E-value=0.011  Score=50.58  Aligned_cols=26  Identities=35%  Similarity=0.447  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            34689999999999999999998753

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.19  E-value=0.012  Score=49.97  Aligned_cols=27  Identities=26%  Similarity=0.385  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+|+|+|.+|+|||||++.+....
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999997653

>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=95.18  E-value=0.011  Score=46.10  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..--|.|+|.+|+|||||++.+.+..
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            35578999999999999999998763

>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=95.17  E-value=0.012  Score=45.15  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578899999999999999998764

>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=95.17  E-value=0.013  Score=47.82  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|+++|.+|+|||||.+.+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998753

>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=95.17  E-value=0.012  Score=45.08  Aligned_cols=25  Identities=32%  Similarity=0.422  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            4568999999999999999998753

>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=95.16  E-value=0.012  Score=44.98  Aligned_cols=25  Identities=28%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.16  E-value=0.012  Score=50.57  Aligned_cols=26  Identities=35%  Similarity=0.487  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45689999999999999999998753

>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=95.14  E-value=0.012  Score=44.87  Aligned_cols=25  Identities=28%  Similarity=0.270  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998764

>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=95.14  E-value=0.011  Score=45.60  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998764

>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=95.14  E-value=0.012  Score=50.71  Aligned_cols=26  Identities=35%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            34689999999999999999998653

>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=95.14  E-value=0.012  Score=45.88  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999998753

>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=95.12  E-value=0.012  Score=44.95  Aligned_cols=25  Identities=32%  Similarity=0.305  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.12  E-value=0.012  Score=46.29  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999987753

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.11  E-value=0.012  Score=45.79  Aligned_cols=25  Identities=32%  Similarity=0.461  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||++.+.+..
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4578999999999999999987653

>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=95.10  E-value=0.014  Score=50.28  Aligned_cols=27  Identities=22%  Similarity=0.455  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.+++|+|+.|+|||||++.+....
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            455789999999999999999997754

>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=95.10  E-value=0.0085  Score=48.73  Aligned_cols=26  Identities=15%  Similarity=0.307  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|.|.|..|+||||+++.+.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999998765

>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=95.10  E-value=0.012  Score=50.73  Aligned_cols=26  Identities=35%  Similarity=0.340  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+.--.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            34689999999999999999998754

>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=95.10  E-value=0.013  Score=44.71  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998763

>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=95.08  E-value=0.013  Score=50.54  Aligned_cols=26  Identities=35%  Similarity=0.289  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45689999999999999999998643

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.07  E-value=0.012  Score=47.10  Aligned_cols=26  Identities=23%  Similarity=0.124  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....|+|+|..|+|||||.+.+....
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            46689999999999999999998764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.07  E-value=0.013  Score=49.94  Aligned_cols=34  Identities=32%  Similarity=0.316  Sum_probs=27.1

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.+.. .+-.+++|+|..|+|||||.+.+.+..
T Consensus        61 ald~ll~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           61 AIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEeeeeecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3444433 356789999999999999999999976

>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=95.06  E-value=0.013  Score=45.21  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-|.|+|.+|+|||||.+.+.+..
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            45689999999999999999997653

>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=95.05  E-value=0.013  Score=44.66  Aligned_cols=25  Identities=24%  Similarity=0.162  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|..|+|||||.+.+.+..
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            5679999999999999999998653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.05  E-value=0.014  Score=46.73  Aligned_cols=24  Identities=33%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-++|.|++|+||||+|+.+.+..
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.05  E-value=0.062  Score=45.55  Aligned_cols=52  Identities=15%  Similarity=0.112  Sum_probs=36.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKK  218 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~  218 (243)
                      .-.++.|.|.+|+||||||..+..+. ...+  ..++|++.  ..+...+...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~-a~~g--~~Vl~fSl--Ems~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSA-LNDD--RGVAVFSL--EMSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHH-HHTT--CEEEEEES--SSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHcC--CeEEEEeC--CCCHHHHHHHHHHH
Confidence            34588899999999999999998876 3311  34566554  45666666666544

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.04  E-value=0.012  Score=45.26  Aligned_cols=25  Identities=32%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999987653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.03  E-value=0.03  Score=44.60  Aligned_cols=56  Identities=14%  Similarity=0.143  Sum_probs=34.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .....|.|.|..|+||||+++.+.+.. .....++......-+......+.+++++.
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l-~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL-SEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH-HHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH-hhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            346789999999999999999999987 33123443331222222223445555554

>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=95.02  E-value=0.012  Score=45.47  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..--|.|+|..|+|||||.+.+.+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            34578999999999999999987653

>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=95.02  E-value=0.016  Score=50.38  Aligned_cols=24  Identities=33%  Similarity=0.616  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|+.|+||||||..+....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            589999999999999999998865

>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=95.01  E-value=0.013  Score=45.30  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998753

>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=95.00  E-value=0.028  Score=50.36  Aligned_cols=44  Identities=9%  Similarity=0.029  Sum_probs=33.5

Q ss_pred             ccccHHHHHHHHHHhc--CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLT--EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+.+..+.+.+...  ..+..+|.+.|+.|+||||+|+.+....
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            3555555556666552  2356789999999999999999999987

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.97  E-value=0.017  Score=44.49  Aligned_cols=24  Identities=25%  Similarity=0.203  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|+|+.|+||||++..+..+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999985555443

>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=94.95  E-value=0.01  Score=50.68  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            34689999999999999999998753

>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=94.95  E-value=0.014  Score=45.33  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999998753

>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=94.93  E-value=0.013  Score=51.41  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -++|+|..|+|||||.+.+...
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            3999999999999999999864

>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=94.91  E-value=0.016  Score=45.78  Aligned_cols=26  Identities=19%  Similarity=0.316  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|.|+|.+|+|||||++.+.+..
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35679999999999999999998764

>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=94.91  E-value=0.013  Score=45.80  Aligned_cols=25  Identities=40%  Similarity=0.462  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..--|.|+|.+|+|||||.+.+.+.
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            3457899999999999999999764

>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=94.90  E-value=0.015  Score=45.08  Aligned_cols=25  Identities=32%  Similarity=0.391  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||...+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999998653

>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=94.90  E-value=0.015  Score=44.47  Aligned_cols=25  Identities=36%  Similarity=0.349  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998763

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.90  E-value=0.026  Score=46.95  Aligned_cols=34  Identities=32%  Similarity=0.593  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++...+..   .+++|+|+.|+|||||.+.+....
T Consensus       160 v~~lf~~l~g---eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhcC---CeEEEECCCCCcHHHHHHHhcccc
Confidence            4455555543   478999999999999999998653

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.89  E-value=0.039  Score=47.77  Aligned_cols=52  Identities=17%  Similarity=0.064  Sum_probs=35.9

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhccc-CCCCCEEEEEEecCcc
Q 038742          153 RVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHT-SNNFDFVIWEVVSRDL  206 (243)
Q Consensus       153 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v-~~~F~~~~wv~vs~~~  206 (243)
                      .+++.+.. .+-..++|+|..|+|||||++.+.+.. .. ...++|+ .+-+.+..
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i-~~~~~~v~~I-~~lIGER~  216 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI-AYNHPDCVLM-VLLIDERP  216 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHH-HHHCTTSEEE-EEEESSCH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHH-hhcCCCeeEE-EEEecCCh
Confidence            35565554 356689999999999999999988764 22 2345544 46677654

>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=94.89  E-value=0.013  Score=44.41  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|..|+|||||.+.+.+.
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            356899999999999999999865

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.87  E-value=0.012  Score=45.19  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=20.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
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            3468899999999999999998654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.87  E-value=0.012  Score=50.36  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|.|||||++.+....
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34589999999999999999998764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.86  E-value=0.019  Score=43.92  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|+|..|+|||||.+.+.+..
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            5689999999999999999998754

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=94.86  E-value=0.015  Score=44.95  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...-|.|+|.+|+|||||++.+.+..
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCC
Confidence            35679999999999999999997653

>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=94.85  E-value=0.009  Score=51.08  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999998643

>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=94.84  E-value=0.016  Score=44.80  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            3468999999999999999998753

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.83  E-value=0.016  Score=45.07  Aligned_cols=25  Identities=28%  Similarity=0.200  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568999999999999999998653

>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=94.83  E-value=0.015  Score=48.63  Aligned_cols=26  Identities=38%  Similarity=0.542  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+|+|.+|+|||||.+.+....
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~~   34 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGTK   34 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            36789999999999999999998764

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=94.80  E-value=0.015  Score=48.47  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|+|+|.+|+|||||.+.+....
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~~   31 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGVK   31 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            4579999999999999999998764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.80  E-value=0.017  Score=49.47  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|..|+|||||.+.+....
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            589999999999999999998754

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.80  E-value=0.0093  Score=45.07  Aligned_cols=24  Identities=33%  Similarity=0.389  Sum_probs=10.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..-|.|+|.+|+|||||.+.+.+.
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            456899999999999999988755

>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=94.77  E-value=0.017  Score=45.52  Aligned_cols=24  Identities=38%  Similarity=0.340  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ...-|.|+|.+|+|||||.+.+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345799999999999999999874

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=94.76  E-value=0.028  Score=47.43  Aligned_cols=41  Identities=7%  Similarity=0.261  Sum_probs=33.5

Q ss_pred             cHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++..+.+.+.+..++ .+.+-++|+.|+||||+|+.+.+..
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l   48 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHH
Confidence            4566777888887765 4578999999999999999998875

>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=94.75  E-value=0.036  Score=48.67  Aligned_cols=43  Identities=28%  Similarity=0.374  Sum_probs=32.7

Q ss_pred             cccHHHHHHHHHHhcC-----------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTE-----------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~-----------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.++-++.+.+.+..           +....|+|+|.+|+|||||.+.+....
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            4667777777766641           124589999999999999999998764

>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=94.75  E-value=0.017  Score=50.02  Aligned_cols=25  Identities=44%  Similarity=0.557  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            4568999999999999999999863

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.73  E-value=0.02  Score=44.88  Aligned_cols=25  Identities=24%  Similarity=0.113  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+.|.|.|..|+||||||..+....
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.72  E-value=0.022  Score=45.56  Aligned_cols=23  Identities=35%  Similarity=0.276  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|-+.|.||+||||+|..+....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            47788999999999998888876

>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=94.72  E-value=0.018  Score=45.15  Aligned_cols=25  Identities=24%  Similarity=0.201  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998753

>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=94.70  E-value=0.012  Score=44.84  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|..|+|||||.+.+.+..
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            4568999999999999999998764

>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=94.70  E-value=0.017  Score=44.62  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=20.8

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLH-GMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~-G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|+|+ +-||+||||+|..+....
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l   26 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL   26 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH
Confidence            688888 778899999999988775

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.70  E-value=0.022  Score=44.56  Aligned_cols=25  Identities=12%  Similarity=0.199  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|.|+.|+||||+++.+....
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998875

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.70  E-value=0.027  Score=51.01  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+|.|+|+.|+|||||++.+....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhh
Confidence            45789999999999999999999876

>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=94.67  E-value=0.025  Score=44.34  Aligned_cols=26  Identities=15%  Similarity=0.253  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|+||+|+||+|.|..+-+..
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            45799999999999999999987754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.64  E-value=0.016  Score=51.40  Aligned_cols=26  Identities=23%  Similarity=0.115  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            45689999999999999999998754

>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=94.61  E-value=0.013  Score=49.49  Aligned_cols=25  Identities=32%  Similarity=0.250  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|.|||||++.+..-.
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999998864

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.60  E-value=0.017  Score=45.02  Aligned_cols=24  Identities=33%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|..|+|||||.+.+.+.
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999998865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.60  E-value=0.019  Score=51.91  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|.|||||++.+..-.
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999999864

>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=94.54  E-value=0.024  Score=45.73  Aligned_cols=25  Identities=24%  Similarity=0.154  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ....|+|+|.+|+|||||.+.+...
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            3567999999999999999999765

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.54  E-value=0.024  Score=48.28  Aligned_cols=30  Identities=27%  Similarity=0.448  Sum_probs=24.5

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          158 LTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       158 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.....+++.+.|.||+||||+|..+....
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l   42 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQL   42 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            334557889999999999999999887654

>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=94.52  E-value=0.046  Score=44.77  Aligned_cols=37  Identities=19%  Similarity=0.212  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          150 TLDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       150 ~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -..-+..||...  +-.-|-++|++|.|||++|..+.+.
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            345567777654  3557999999999999999999885

>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=94.51  E-value=0.024  Score=50.95  Aligned_cols=26  Identities=15%  Similarity=0.308  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.++|++|.||||+|+.+....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999997765

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=93.53  E-value=0.0065  Score=47.05  Aligned_cols=32  Identities=25%  Similarity=0.186  Sum_probs=24.2

Q ss_pred             HHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          155 WRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       155 ~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+.+...+.--|.|+|.+|+|||||.+.+.+.
T Consensus        22 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           22 ENLYFQGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            33344455567899999999999999877654

>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=94.49  E-value=0.022  Score=46.29  Aligned_cols=23  Identities=35%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +.|+++|.+|+|||||.+.+...
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            46899999999999999999876

>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=94.46  E-value=0.015  Score=46.29  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|.|-||+||||+|..+....
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~l   24 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKIM   24 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            47789999999999999998876

>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=94.45  E-value=0.018  Score=50.38  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |+|+|..|+|||||++.+....
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            4999999999999999998754

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.44  E-value=0.019  Score=51.83  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999998754

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.40  E-value=0.085  Score=41.74  Aligned_cols=25  Identities=20%  Similarity=0.314  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -..|.+-|..|+||||+++.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999987

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.40  E-value=0.022  Score=51.43  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998643

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.38  E-value=0.094  Score=48.34  Aligned_cols=63  Identities=21%  Similarity=0.300  Sum_probs=39.2

Q ss_pred             HHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          149 STLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       149 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      ...+.+...|...+  +.-|+|++|.|||+.+-.+.... - +.  ...+.||...+..+..++..+..
T Consensus       193 ~Q~~AV~~al~~~~--~~lI~GPPGTGKT~ti~~~I~~l-~-~~--~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          193 SQKEAVLFALSQKE--LAIIHGPPGTGKTTTVVEIILQA-V-KQ--GLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHHHHHHHHHHCSS--EEEEECCTTSCHHHHHHHHHHHH-H-HT--TCCEEEEESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCC--ceEEECCCCCCHHHHHHHHHHHH-H-hC--CCeEEEEcCchHHHHHHHHHHHh
Confidence            34555555564443  45689999999997554444333 1 22  23678887777677777776643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.36  E-value=0.022  Score=51.45  Aligned_cols=25  Identities=40%  Similarity=0.634  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|.|||||++.+..-.
T Consensus        25 Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           25 NTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999998743

>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=94.36  E-value=0.031  Score=41.46  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=20.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ..+..|+|+.|.|||||..+++-
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45889999999999999999874

>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=94.36  E-value=0.025  Score=50.07  Aligned_cols=26  Identities=15%  Similarity=0.259  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+|.++|++|+||||+++.+....
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45688999999999999999998875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.35  E-value=0.024  Score=49.83  Aligned_cols=34  Identities=26%  Similarity=0.280  Sum_probs=26.8

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.+.. .+-.+++|+|..|+|||||++.+....
T Consensus       147 vld~vl~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          147 AINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             HHHHHSCCBTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEeeeEEecCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            3443333 356789999999999999999999975

>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=94.35  E-value=0.024  Score=44.80  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|-+|+|||+|+..+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            5789999999999999988765

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=94.34  E-value=0.024  Score=44.57  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .--|.|+|.+|+|||||.+.+.+..
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999988753

>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=94.34  E-value=0.023  Score=52.08  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|+.|.|||||++.+..-.
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999999854

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=94.33  E-value=0.042  Score=45.11  Aligned_cols=26  Identities=15%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....|+|+|.+|+|||||.+.+....
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            46689999999999999999998764

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.32  E-value=0.019  Score=46.92  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|+|+|.+|+|||||.+.++..
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            35899999999999999997654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.32  E-value=0.03  Score=42.49  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+.--|.|+|.+|+|||||.+.+.+.
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcC
Confidence            45667999999999999999998543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.30  E-value=0.048  Score=44.20  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+++|..|+|||||.+.+....
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

>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=94.29  E-value=0.025  Score=50.34  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|+.|.|||||.+.+..-.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            899999999999999999998653

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=94.27  E-value=0.013  Score=45.90  Aligned_cols=26  Identities=19%  Similarity=0.247  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+|+|..|+|||||.+.+....
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999998764

>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=94.24  E-value=0.11  Score=45.98  Aligned_cols=63  Identities=22%  Similarity=0.349  Sum_probs=47.1

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc-HHHHHHHHHHH
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ-LEKMQESIAKK  218 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~I~~~  218 (243)
                      .++.|.. .+-.-++|.|..|+|||+|++.+.++.  .+.+-+.++++-+.+... +.++.+++.+.
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~--~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHT--TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhh--HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            4665654 355679999999999999999998864  133457788888887654 67788888764

>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=94.24  E-value=0.024  Score=48.63  Aligned_cols=26  Identities=23%  Similarity=0.436  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|+|+|.+|+|||||.+.+....
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            46789999999999999999998764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.17  E-value=0.026  Score=51.71  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|+|..|.|||||++.+..-.
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC
Confidence            579999999999999999998754

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=94.16  E-value=0.089  Score=44.50  Aligned_cols=30  Identities=30%  Similarity=0.430  Sum_probs=24.3

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          158 LTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       158 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.....+++.+.|-||+||||+|..+....
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~l   40 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQL   40 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHH
Confidence            334456788888999999999999988765

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=94.16  E-value=0.012  Score=49.42  Aligned_cols=23  Identities=35%  Similarity=0.544  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+++|+|+.|+|||||.+.+...
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            58999999999999999999754

>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=94.16  E-value=0.031  Score=45.91  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...|+++|.+|+|||||.+.+...
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            357999999999999999999874

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.15  E-value=0.029  Score=43.98  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=19.8

Q ss_pred             EEEEE-cCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLH-GMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~-G~gGiGKTtLa~~v~~~~  187 (243)
                      +|+|+ +-||+||||+|..+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~l   25 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYL   25 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHH
Confidence            67776 788999999999998876

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.09  E-value=0.14  Score=45.24  Aligned_cols=61  Identities=20%  Similarity=0.292  Sum_probs=39.8

Q ss_pred             HHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc-cHHHHHHHHHH
Q 038742          155 WRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL-QLEKMQESIAK  217 (243)
Q Consensus       155 ~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~I~~  217 (243)
                      ++.|.. .+-..++|+|..|+|||||++.+..+. ... +-+.++++.+.+.. ...++..++..
T Consensus       142 ID~L~pi~kGq~~~i~G~sGvGKTtL~~~l~~~~-~~~-~~~i~V~~~iGerttev~el~~~l~~  204 (473)
T 1sky_E          142 VDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNI-AQE-HGGISVFAGVGERTREGNDLYHEMKD  204 (473)
T ss_dssp             HHHHSCEETTCEEEEECCSSSCHHHHHHHHHHHH-HHH-TCCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             HHHHhhhccCCEEEEECCCCCCccHHHHHHHhhh-hhc-cCcEEEEeeeccCchHHHHHHHHhhh
Confidence            444543 123468999999999999999998875 322 22445667776654 35566665543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.09  E-value=0.028  Score=51.53  Aligned_cols=26  Identities=35%  Similarity=0.617  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            35689999999999999999998754

>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=94.07  E-value=0.034  Score=47.68  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.8

Q ss_pred             CceEEEEEc-CCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHG-MGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G-~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|+|+| -||+||||+|-.+....
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~L  168 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAH  168 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHH
Confidence            578999995 99999999999888765

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.06  E-value=0.055  Score=44.02  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....|.++|..|+|||||.+.+.+..
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998764

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.06  E-value=0.035  Score=44.13  Aligned_cols=50  Identities=18%  Similarity=0.124  Sum_probs=30.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .-.++-|.|.+|+||||||.++..+. - ...-..+++++..  .+...+.+.+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~-~-~~~~~~v~~~s~E--~~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG-A-EEYGEPGVFVTLE--ERARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-H-HHHCCCEEEEESS--SCHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-H-HhcCCCceeeccc--CCHHHHHHHH
Confidence            35688999999999999998865432 1 1111234555443  3455555444

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=93.98  E-value=0.031  Score=48.02  Aligned_cols=22  Identities=36%  Similarity=0.703  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .|+|+|.+|+|||||.+.+...
T Consensus         3 ~v~IVG~pnvGKSTL~n~L~~~   24 (368)
T 2dby_A            3 AVGIVGLPNVGKSTLFNALTRA   24 (368)
T ss_dssp             SEEEECCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4799999999999999999875

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.97  E-value=0.081  Score=47.85  Aligned_cols=43  Identities=14%  Similarity=0.087  Sum_probs=31.3

Q ss_pred             cccHHHHHHHHHHh--cCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCL--TEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+.+..+.+....  ......+|.+.|+.|+||||+|+.+....
T Consensus       352 ~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          352 FTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHh
Confidence            34444555555555  22346789999999999999999998875

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=93.97  E-value=0.033  Score=48.24  Aligned_cols=24  Identities=38%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -..++|+|.+|+|||||.+.+...
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            458999999999999999999884

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=93.96  E-value=0.012  Score=45.29  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=5.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .--|.|+|..|+|||||.+.+...
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            346899999999999999988776

>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=93.95  E-value=0.023  Score=48.68  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|+|+|..|+|||||++.++..
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHhCC
Confidence            34699999999999999998764

>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=93.95  E-value=0.031  Score=45.40  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|+++|.+|+|||||.+.+....
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~~   29 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGTK   29 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTTC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCC
Confidence            3468999999999999999998753

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=93.93  E-value=0.075  Score=43.81  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-.++++|.+|+|||||.+.+....
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~  144 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKN  144 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCc
Confidence            34578999999999999999998753

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.92  E-value=0.14  Score=44.94  Aligned_cols=52  Identities=12%  Similarity=0.040  Sum_probs=35.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .-.++.|.|.+|+||||||..+..+. -.... ..++|++..  .+...+...++.
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~-a~~~g-~~vl~~slE--~~~~~l~~R~~~  250 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNA-ALKEG-VGVGIYSLE--MPAAQLTLRMMC  250 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHH-HHTTC-CCEEEEESS--SCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHhCC-CeEEEEECC--CCHHHHHHHHHH
Confidence            34588999999999999999998875 32211 246666654  345566655543

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.91  E-value=0.11  Score=45.66  Aligned_cols=50  Identities=12%  Similarity=0.130  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIA  216 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~  216 (243)
                      +-.++-|.|.+|+||||||..+..+. -..+  ..++|++...  +...+...++
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~-a~~g--~~vl~fSlEm--s~~ql~~R~~  245 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNM-SDND--DVVNLHSLEM--GKKENIKRLI  245 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHH-HHTT--CEEEEECSSS--CTTHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHH-HHcC--CEEEEEECCC--CHHHHHHHHH
Confidence            34689999999999999999998876 3332  3566666543  3334444443

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=93.90  E-value=0.042  Score=44.34  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .+|+|.|+.|+||||+|+.+-..
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~   24 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999775

>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=93.89  E-value=0.03  Score=51.30  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+++|+|..|.|||||++.+..-.
T Consensus       117 Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          117 GMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCC
Confidence            4689999999999999999998643

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=93.87  E-value=0.018  Score=45.17  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHH-HHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQ-INNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~-v~~~  186 (243)
                      .--|.|+|.+|+|||||.+. +.+.
T Consensus        15 ~~ki~v~G~~~~GKSsli~~~~~~~   39 (221)
T 3gj0_A           15 QFKLVLVGDGGTGKTTFVKRHLTGE   39 (221)
T ss_dssp             EEEEEEEECTTSSHHHHHTTBHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            44689999999999999998 4443

>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=93.85  E-value=0.13  Score=45.76  Aligned_cols=63  Identities=22%  Similarity=0.316  Sum_probs=47.0

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc-HHHHHHHHHHH
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ-LEKMQESIAKK  218 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~I~~~  218 (243)
                      .++.|.. .+-.-++|.|-.|+|||+|++.+.++.  .+.+-+.++++-+.+... ..++.+++.+.
T Consensus       155 vID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~--a~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          155 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNI--AKAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHT--TTTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHH--HhhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            3555554 345679999999999999999998874  134557888888887664 67788887653

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.83  E-value=0.046  Score=43.51  Aligned_cols=25  Identities=12%  Similarity=0.142  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            4699999999999999999998865

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=93.80  E-value=0.036  Score=47.25  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +...|+++|.+|+|||||.+.+....
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998753

>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=93.80  E-value=0.032  Score=50.86  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            45689999999999999999998654

>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=93.79  E-value=0.033  Score=50.76  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999997654

---

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	243
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-10

>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 = 56.7 bits (136), Expect = 3e-10
 Identities = 18/85 (21%), Positives = 30/85 (35%), Gaps = 4/85 (4%)

Query: 139 PLPPAVVGFQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQI-NNSFLHTSNNF 194
           P        +  +DRV + L E        + LHG  G GK+ + +Q  + S      N+
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 195 DFVIWEVVSRDLQLEKMQESIAKKI 219
           D ++W   S               +
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILL 101

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	243
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.81
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.65
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.35
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.25
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.03
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.99
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.97
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.91
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.91
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.9
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.87
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.87
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.77
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.69
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.68
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.64
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.63
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.56
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.55
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.55
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.52
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.5
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.49
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.46
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.44
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.42
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.4
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.36
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.33
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.32
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.32
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.32
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.27
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.26
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.26
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.25
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.24
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.2
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.2
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.17
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.16
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.16
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.15
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.14
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.11
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.09
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.04
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.03
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.02
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.95
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.94
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.91
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.89
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.88
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.88
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.87
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.83
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.82
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.81
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.81
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.81
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.76
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.76
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.76
d1okkd2	207	GTPase domain of the signal recognition particle r	96.73
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.72
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.7
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.69
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.65
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.64
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.64
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.62
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.59
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.59
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.59
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.58
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.58
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.55
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.52
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.5
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.42
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.38
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.38
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.37
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.37
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.35
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.35
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.34
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.31
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.3
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.27
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.26
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.2
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.18
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.17
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.15
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.14
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.14
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.1
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.1
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.09
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.09
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.08
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.07
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.06
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.05
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.04
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.03
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	96.01
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.0
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.97
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.97
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.95
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.9
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.9
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.9
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.89
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.88
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.88
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.88
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.87
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.85
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.84
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.84
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.84
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.83
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.83
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.82
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.8
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.78
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.76
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.74
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.74
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.73
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.73
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.72
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.72
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.71
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.71
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.68
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.68
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.67
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.66
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.65
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.62
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.62
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.61
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.58
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.58
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.57
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.56
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.55
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.55
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.53
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.53
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.51
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.5
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.5
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.49
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.48
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.48
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.46
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.43
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.42
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.39
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.39
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.38
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.32
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.32
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.28
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	95.27
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.23
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.21
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.2
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.19
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.17
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.15
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.12
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.11
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.11
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.1
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.09
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.08
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.03
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.02
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.01
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.96
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	94.92
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.92
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.86
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.85
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.75
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.75
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.72
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.7
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.68
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.65
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.57
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.47
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.44
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.37
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.35
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.32
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	94.28
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.02
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.94
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.88
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.86
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	93.76
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.57
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.54
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.52
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	93.31
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.14
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.84
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.84
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.49
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.25
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	92.24
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	92.13
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.01
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.78
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	91.71
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.69
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	91.64
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	91.57
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	91.37
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	91.04
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.98
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	90.97
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.92
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.6
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.32
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.3
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	90.15
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	89.15
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.12
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.71
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	88.05
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	88.03
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.52
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	87.27
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	86.68
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	85.34
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	84.9
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	83.61
d1r0ka2	150	1-deoxy-D-xylulose-5-phosphate reductoisomerase {Z	83.4
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	83.24
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	82.63
d1q0qa2	151	1-deoxy-D-xylulose-5-phosphate reductoisomerase {E	80.34

>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=99.81  E-value=7e-20  Score=151.48  Aligned_cols=102  Identities=18%  Similarity=0.130  Sum_probs=82.4

Q ss_pred             CCcccccHHHHHHHHHHhcC---CCceEEEEEcCCCCcHHHHHHHHHhhhcc--cCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE---EPVGIVGLHGMGGVGKTTLLTQINNSFLH--TSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      .+.++||+.++++|+++|..   .+.++|+|+||||+||||||+++|++. .  ...+|++++||++++.++...+...+
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~-~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKS-DQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHC-SSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhh-hhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            46689999999999999963   468899999999999999999999985 3  57789999999999999887776666


Q ss_pred             HHHh---cC------------CCHHHHHHHHHHHhhcCceEEC
Q 038742          216 AKKI---AF------------SSFHEKAQEIFKTMRNTKFVLL  243 (243)
Q Consensus       216 ~~~l---~~------------~~~~~~~~~l~~~L~~kr~Llv  243 (243)
                      ...+   +.            .+.......+.+.|.+||||||
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlV  140 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV  140 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEE
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEe
Confidence            4433   22            1233445668889999999986

>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=98.65  E-value=1.7e-07  Score=74.71  Aligned_cols=92  Identities=15%  Similarity=0.110  Sum_probs=67.8

Q ss_pred             CcccccHHHHHHHHHHhcC------CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCC-EEEEEEecCcccHHHHHHH
Q 038742          142 PAVVGFQSTLDRVWRCLTE------EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFD-FVIWEVVSRDLQLEKMQES  214 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~-~~~wv~vs~~~~~~~i~~~  214 (243)
                      ..++||+.+++.|.++|..      ...+.+-|+|++|+||||+|+.+.+..   .+.+. ..+|+..........+...
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l---~~~~~~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH---hcccCCcEEEecchhhhhhhhhhhh
Confidence            4589999999999998853      246788999999999999999999987   33333 2456666666777888888


Q ss_pred             HHHHhcC------CCHHHHHHHHHHHhh
Q 038742          215 IAKKIAF------SSFHEKAQEIFKTMR  236 (243)
Q Consensus       215 I~~~l~~------~~~~~~~~~l~~~L~  236 (243)
                      +....+.      .........+.+.+.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (276)
T d1fnna2          93 IARSLNIPFPRRGLSRDEFLALLVEHLR  120 (276)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHH
T ss_pred             hHHhhhhhhhhhccchhHHHHHHHHHHh
Confidence            8887765      344555555555443

>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=98.35  E-value=1.5e-06  Score=69.41  Aligned_cols=96  Identities=15%  Similarity=0.116  Sum_probs=66.2

Q ss_pred             CCcccccHHHHHHHHHHhcC----C----C-ceEEEEEcCCCCcHHHHHHHHHhhhcc---cCCCCCEEEEEEecCcccH
Q 038742          141 PPAVVGFQSTLDRVWRCLTE----E----P-VGIVGLHGMGGVGKTTLLTQINNSFLH---TSNNFDFVIWEVVSRDLQL  208 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~----~----~-~~vi~I~G~gGiGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~  208 (243)
                      ++.++||+.+.+.|.++|..    +    + ..++.++|++|+||||+++.+.+...+   .........++......+.
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            46789999999999987742    1    1 235667899999999999999987521   1111234567777777778


Q ss_pred             HHHHHHHHHHhcC------CCHHHHHHHHHHHhh
Q 038742          209 EKMQESIAKKIAF------SSFHEKAQEIFKTMR  236 (243)
Q Consensus       209 ~~i~~~I~~~l~~------~~~~~~~~~l~~~L~  236 (243)
                      ..+...+...++.      .........+.+.+.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  128 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLY  128 (287)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH
T ss_pred             hhHHHHHhhhcccccccccchHHHHHHHHHHHHH
Confidence            8888888777665      344555555555553

>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=98.25  E-value=7.3e-07  Score=70.94  Aligned_cols=43  Identities=12%  Similarity=0.163  Sum_probs=37.0

Q ss_pred             CCcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          141 PPAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       141 ~~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++||++++++|.+.    ..+++.|+|++|+|||||++++.++.
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            35699999999998774    35689999999999999999998876

>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=98.03  E-value=3.5e-06  Score=64.20  Aligned_cols=45  Identities=24%  Similarity=0.364  Sum_probs=39.0

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++||++++++++..|...+-.-+-+||.+|+|||+++..+..+.
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHH
Confidence            379999999999999998655667899999999999998887754

>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=97.99  E-value=3.4e-06  Score=65.87  Aligned_cols=46  Identities=22%  Similarity=0.307  Sum_probs=41.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|-++.++.|.+++...+.+-+-++|++|+||||+|+.+.+..
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999999999999998887778899999999999999998865

>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=97.97  E-value=4.7e-06  Score=66.82  Aligned_cols=78  Identities=21%  Similarity=0.308  Sum_probs=54.7

Q ss_pred             cccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhc--ccCCC-CCEEEEEE-----ecC---cccHHHH
Q 038742          143 AVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFL--HTSNN-FDFVIWEV-----VSR---DLQLEKM  211 (243)
Q Consensus       143 ~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~v~~~-F~~~~wv~-----vs~---~~~~~~i  211 (243)
                      .++||++++++++..|....-+-+-+||.+|+|||+|+..+.....  .+... ...++|.-     ++.   .-..++-
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r   98 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKR   98 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHH
T ss_pred             cccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHH
Confidence            4799999999999999876555566999999999999988887641  12222 24466652     221   2256777


Q ss_pred             HHHHHHHhc
Q 038742          212 QESIAKKIA  220 (243)
Q Consensus       212 ~~~I~~~l~  220 (243)
                      ++.|++.+.
T Consensus        99 ~~~i~~~~~  107 (268)
T d1r6bx2          99 FKALLKQLE  107 (268)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhh
Confidence            777777763

>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=97.91  E-value=4.3e-06  Score=65.03  Aligned_cols=46  Identities=26%  Similarity=0.437  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-++.++.|.+++.+....-+-++|++|+||||+|+.+.+..
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            5689999999999999998876667799999999999999988765

>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=97.91  E-value=5.4e-06  Score=64.41  Aligned_cols=46  Identities=20%  Similarity=0.294  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++.++.|.+++..+....+-++|++|+||||+|+.+.+..
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh
Confidence            4589999999999999988776656699999999999999999875

>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=97.90  E-value=4.2e-06  Score=65.29  Aligned_cols=46  Identities=15%  Similarity=0.219  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++..+.|..++.....+.+-++|++|+||||+|+.+.+..
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            4589999999999999988877768899999999999999998874

>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=97.87  E-value=6e-06  Score=64.73  Aligned_cols=46  Identities=28%  Similarity=0.391  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|-++.+++|..++..     ...+-+-++|++|+||||+|+.+.+..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999988888752     235556799999999999999999976

>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=97.87  E-value=6.1e-06  Score=64.58  Aligned_cols=46  Identities=28%  Similarity=0.348  Sum_probs=38.6

Q ss_pred             CcccccHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++.++.|..++..     ...+-+-++|++|+||||+|+.+.+..
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc
Confidence            4589999999999988853     234556799999999999999999987

>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=97.77  E-value=2.8e-05  Score=61.06  Aligned_cols=62  Identities=18%  Similarity=0.185  Sum_probs=46.7

Q ss_pred             CcccccHHHHHHHHHHhcC-----------------CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC
Q 038742          142 PAVVGFQSTLDRVWRCLTE-----------------EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR  204 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  204 (243)
                      .+++|.+..+++|.++|..                 ...+.+-++|++|+||||+|+.+.+..     .+ ...++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GY-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TC-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hh-hhhcccccc
Confidence            4589999999999998853                 135678999999999999999999976     12 245566555


Q ss_pred             cccHH
Q 038742          205 DLQLE  209 (243)
Q Consensus       205 ~~~~~  209 (243)
                      ..+..
T Consensus        88 ~~~~~   92 (253)
T d1sxja2          88 VRSKT   92 (253)
T ss_dssp             CCCHH
T ss_pred             chhhH
Confidence            44443

>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=97.69  E-value=1.1e-05  Score=59.23  Aligned_cols=25  Identities=28%  Similarity=0.546  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++||+|+|..|+|||||++.+.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999998865

>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=97.68  E-value=1.1e-05  Score=59.93  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|.|.|+.|+||||||+.+.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999876

>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=97.64  E-value=1.5e-05  Score=62.57  Aligned_cols=46  Identities=17%  Similarity=0.084  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHhcCC-CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEE-PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++..+.|.+++... ...-+-++|++|+||||+|+.+.+..
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            45899999888888888654 34446699999999999999998864

>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=97.63  E-value=2.8e-05  Score=65.50  Aligned_cols=58  Identities=22%  Similarity=0.280  Sum_probs=41.7

Q ss_pred             ccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhc--ccCCC-CCEEEEEE
Q 038742          144 VVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFL--HTSNN-FDFVIWEV  201 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~v~~~-F~~~~wv~  201 (243)
                      ++||+.+++++++.|....-.-+-+||.+|+|||+|+..+.....  .+... .+.++|.-
T Consensus        24 ~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~l   84 (387)
T d1qvra2          24 VIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSL   84 (387)
T ss_dssp             CCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEE
T ss_pred             CcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEe
Confidence            799999999999999875444457889999999998755554321  33333 35666664

>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=97.56  E-value=1.6e-05  Score=57.60  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|-+.|++|+||||+|+.+....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            458888999999999999999976

>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=97.55  E-value=2.4e-05  Score=57.26  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998765

>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=97.55  E-value=2.5e-05  Score=56.35  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|.|++|+||||||+.+..+.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            478899999999999999987653

>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=97.52  E-value=2.1e-05  Score=57.78  Aligned_cols=24  Identities=38%  Similarity=0.408  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|.|.|++|+||||+|+.+..+.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999998875

>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=97.50  E-value=3.1e-05  Score=57.03  Aligned_cols=25  Identities=16%  Similarity=0.151  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|.++|++|+||||+|+.+....
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999886

>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=97.49  E-value=3.6e-05  Score=58.07  Aligned_cols=27  Identities=30%  Similarity=0.316  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++..+|.|+|++|+||||+|+.+.++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999999876

>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=97.46  E-value=7.1e-05  Score=55.99  Aligned_cols=28  Identities=29%  Similarity=0.514  Sum_probs=24.9

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          160 EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       160 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.-+|||.|..|+||||||+.+.+..
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3466799999999999999999999876

>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=97.44  E-value=3e-05  Score=57.27  Aligned_cols=24  Identities=42%  Similarity=0.502  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999886

>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=97.42  E-value=4.3e-05  Score=56.21  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +||+|+|..|+|||||+..+....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998876

>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=97.40  E-value=4.3e-05  Score=56.58  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|.|++|+||||+++.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999876

>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=97.36  E-value=0.00012  Score=57.56  Aligned_cols=41  Identities=29%  Similarity=0.325  Sum_probs=29.9

Q ss_pred             cHHHHHHHHHHhcC-----CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          147 FQSTLDRVWRCLTE-----EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       147 ~~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.+.+.++.|..     +..+.|-++|++|+||||||+.+.+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          11 FENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444444444533     246678899999999999999999976

>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=97.33  E-value=7e-05  Score=56.53  Aligned_cols=27  Identities=22%  Similarity=0.395  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.+||.|.|++|+||||+|+.+..+.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999999976

>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=97.32  E-value=6.1e-05  Score=55.37  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++||+|+||||+++.+.+..
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4466999999999999999987

>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=97.32  E-value=6.7e-05  Score=56.92  Aligned_cols=25  Identities=16%  Similarity=0.311  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+|.++|.+|+||||||+.+....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999765

>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=97.32  E-value=3.8e-05  Score=57.54  Aligned_cols=25  Identities=32%  Similarity=0.429  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.+|-++|++|+||||+|+.+....
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999998876

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.27  E-value=7.6e-05  Score=54.75  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...|.|.|++|+||||+|+.+.++.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998865

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=9.5e-05  Score=54.09  Aligned_cols=26  Identities=23%  Similarity=0.441  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+++.|.|++|+||||+|+.+....
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999998876

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=0.00012  Score=57.19  Aligned_cols=46  Identities=24%  Similarity=0.289  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++|.++.++.|.+++..++ .+.+-++|++|+||||+|+.+.+..
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            458999999999999998775 4457799999999999999987654

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.25  E-value=7.8e-05  Score=54.68  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++||+|+||||+++.+..+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999987

>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=97.24  E-value=0.00012  Score=59.51  Aligned_cols=46  Identities=20%  Similarity=0.205  Sum_probs=36.4

Q ss_pred             CcccccHHHHHHHHHHhc----C----------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT----E----------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~----~----------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++.+...+.    .          ...+-+-++|++|+|||.||+.+.+..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            457899998888876551    1          145677899999999999999999976

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.20  E-value=9.8e-05  Score=54.06  Aligned_cols=25  Identities=16%  Similarity=0.360  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++|.|.|..|+||||+|+.+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999975

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.20  E-value=9e-05  Score=54.38  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -++|.|.|++|+||||+|+.+....
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999997754

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.17  E-value=9.9e-05  Score=54.42  Aligned_cols=23  Identities=39%  Similarity=0.561  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|+.|+|||||++.+....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            38999999999999999999865

>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=97.16  E-value=0.00034  Score=55.01  Aligned_cols=46  Identities=26%  Similarity=0.239  Sum_probs=34.9

Q ss_pred             CcccccHHHHHHHHH---HhcC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWR---CLTE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~---~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++.++.|.+   .+..         ...+-|-++|++|+|||+||+.+.+..
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~   66 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   66 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc
Confidence            458899887666554   3322         134568899999999999999999876

>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=97.16  E-value=0.0002  Score=56.69  Aligned_cols=46  Identities=28%  Similarity=0.248  Sum_probs=35.9

Q ss_pred             CcccccHHHHHHHHHH---hcC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRC---LTE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~---L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++++|.++.+++|.+.   +..         ...+-+-++|++|+|||+||+.+.+..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc
Confidence            4689999888777554   322         135668899999999999999999876

>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=97.15  E-value=0.00011  Score=56.04  Aligned_cols=41  Identities=17%  Similarity=0.386  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAK  217 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~  217 (243)
                      .+||+|-|++|+||||+|+.+.++.     .|.+     +    +.-.++|+++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~-----gl~~-----i----StGdLlR~~a~   43 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL-----QWHL-----L----DSGAIYRVLAL   43 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH-----TCEE-----E----EHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh-----CCcE-----E----CHHHHHHHHHH
Confidence            3699999999999999999999987     3322     2    44567776654

>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=97.14  E-value=0.00025  Score=55.79  Aligned_cols=46  Identities=24%  Similarity=0.274  Sum_probs=34.8

Q ss_pred             CcccccHHHHHHHHHHhc-------C---CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT-------E---EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|..+.++.+++-+.       .   .+.+-|-++|++|+|||+||+.+.+..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            447887776666665543       1   245667899999999999999999976

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.11  E-value=0.00011  Score=54.21  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.++|++|+||||+|+.+.+..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999999987

>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=97.09  E-value=0.00016  Score=53.55  Aligned_cols=24  Identities=33%  Similarity=0.567  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|.|++|+||||+++.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999887

>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=97.08  E-value=0.00017  Score=54.10  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|.|++|+||||.|+.+.++.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999976

>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=97.04  E-value=0.00017  Score=53.48  Aligned_cols=27  Identities=26%  Similarity=0.274  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+..+|-++|++|+||||+|+.+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346799999999999999999887654

>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=97.03  E-value=0.00021  Score=56.59  Aligned_cols=46  Identities=24%  Similarity=0.297  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHh----cC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCL----TE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L----~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.++.+++|.+.+    ..         ...+-|-++|++|+|||+||+.+.+..
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh
Confidence            35889999888887764    32         135678899999999999999999976

>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=97.02  E-value=0.0025  Score=48.61  Aligned_cols=57  Identities=14%  Similarity=0.246  Sum_probs=36.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHH--HHHHHHHHHhcC
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLE--KMQESIAKKIAF  221 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~--~i~~~I~~~l~~  221 (243)
                      ....||.++|+.|+||||.+-.+.... + +..  ..+.+....++.+.  +=++...+.++.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~v   65 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-E-QQG--KSVMLAAGDTFRAAAVEQLQVWGQRNNI   65 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-H-TTT--CCEEEECCCTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCC--CcEEEEecccccccchhhhhhhhhhcCC
Confidence            357899999999999999888888776 3 222  34444444455443  334444555554

>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=96.95  E-value=0.00023  Score=54.28  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-||||.|..|+||||||+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>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=96.94  E-value=0.00024  Score=54.32  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+|+|-|++|+||||+|+.+..+.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999999987

>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=96.91  E-value=0.00022  Score=53.32  Aligned_cols=25  Identities=24%  Similarity=0.201  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..|.|.|++|+||||+|+.+.++.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457799999999999999999886

>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=96.89  E-value=0.00024  Score=56.23  Aligned_cols=24  Identities=29%  Similarity=0.578  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|+|+|-||+||||+|-.+....
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~L   25 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGL   25 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHH
Confidence            689999999999999999988876

>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=96.88  E-value=0.00028  Score=52.19  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|++|+||||+|+.+..+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999999998876

>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=96.88  E-value=0.00091  Score=54.67  Aligned_cols=36  Identities=19%  Similarity=0.331  Sum_probs=28.6

Q ss_pred             HHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          152 DRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       152 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++++.+..  .+..+|+|.|.+|+|||||...+....
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            445554433  468999999999999999999998765

>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=96.87  E-value=0.00033  Score=52.34  Aligned_cols=24  Identities=38%  Similarity=0.523  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++| |+|++|+||||+|+.+..+.
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHHh
Confidence            4556 78999999999999999876

>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=96.83  E-value=0.0039  Score=47.34  Aligned_cols=56  Identities=14%  Similarity=0.156  Sum_probs=35.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc--HHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ--LEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~--~~~i~~~I~~~l~~  221 (243)
                      +.+||.++|+.|+||||.+-.+.... ..+ .. .+.-++.. ++-  ..+-++...+.++.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~-~~~-g~-kV~lit~D-t~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYY-KGK-GR-RPLLVAAD-TQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH-HHT-TC-CEEEEECC-SSCHHHHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHC-CC-cEEEEecc-cccchHHHHHHHHHHhcCC
Confidence            46899999999999999888887776 322 23 34444442 232  33444455555554

>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=96.82  E-value=0.00036  Score=51.77  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999999999987

>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=96.81  E-value=0.00035  Score=52.28  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      .-+|||.|..|+||||+|+.+-+
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999998743

>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=96.81  E-value=0.00034  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.340  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|.|++|+||||+|+.+.+..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37788999999999999999987

>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=96.81  E-value=0.0013  Score=53.66  Aligned_cols=37  Identities=22%  Similarity=0.372  Sum_probs=28.8

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++++.+..  .+..+|+|.|++|+|||||...+....
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            4445554432  478899999999999999999998764

>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=96.76  E-value=0.00036  Score=52.39  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.|.|.|++|+||||+|+.+..+.
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3456688999999999999999876

>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=96.76  E-value=0.00042  Score=51.99  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++|.|.|++|+||||+|+.+.+..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998876

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.76  E-value=0.0017  Score=49.53  Aligned_cols=38  Identities=21%  Similarity=0.231  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      ...||.++|+.|+||||.+-.+.... +.. ... ++.|+.
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~-~~~-g~k-V~lit~   48 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFY-KKK-GFK-VGLVGA   48 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHH-HHT-TCC-EEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HHC-CCc-eEEEEe
Confidence            57899999999999999877777766 433 233 566654

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.73  E-value=0.003  Score=48.00  Aligned_cols=57  Identities=18%  Similarity=0.247  Sum_probs=37.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC-cccHHHHHHHHHHHhcC
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR-DLQLEKMQESIAKKIAF  221 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~I~~~l~~  221 (243)
                      +.+||.++|+.|+||||.+-.+.... ...+  ..++.++... .....+=++...+.++.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~-~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i   62 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYY-QNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSI   62 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH-HTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CcEEEEEeccccccchhhHhhcccccCc
Confidence            46899999999999999988888776 4222  2466666532 33444445555555554

>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=96.72  E-value=0.0011  Score=53.78  Aligned_cols=46  Identities=26%  Similarity=0.439  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhcC---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++.+...+..         ....++..+|+.|+|||.||+.+..-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            5689999999988776631         145688899999999999999998865

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.70  E-value=0.008  Score=45.73  Aligned_cols=58  Identities=17%  Similarity=0.239  Sum_probs=37.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecC-cccHHHHHHHHHHHhcC
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSR-DLQLEKMQESIAKKIAF  221 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~I~~~l~~  221 (243)
                      .+..||.++|+.|+||||.+-.+.... ..+.  ..+..++... .....+=++...+.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF-VDEG--KSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CceEEEeecccccchhHHHHHHhhhcCc
Confidence            357899999999999999888887776 3332  3456666532 22233345555555554

>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=96.69  E-value=0.0011  Score=50.45  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..|+|-|+.|+||||+++.+.+..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999986

>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=96.65  E-value=0.00077  Score=53.31  Aligned_cols=37  Identities=32%  Similarity=0.500  Sum_probs=29.5

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+...+.....+||.+.|-||+||||++-.+....
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445666667789999999999999999887776654

>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=96.64  E-value=0.00045  Score=51.63  Aligned_cols=24  Identities=29%  Similarity=0.530  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-|.|+|+.|+|||||++.+.++.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            347899999999999999998865

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.00054  Score=50.63  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|.|++|+||||+|+.+.++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999876

>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=96.62  E-value=0.00058  Score=52.62  Aligned_cols=23  Identities=39%  Similarity=0.524  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ||+|+|+.|.|||||.+.+-.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            79999999999999999998765

>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=96.59  E-value=0.00063  Score=50.47  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++|.|+|+.|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999998764

>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=96.59  E-value=0.00051  Score=51.58  Aligned_cols=23  Identities=39%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.|+|+.|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            36799999999999999998865

>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=96.59  E-value=0.0012  Score=50.49  Aligned_cols=59  Identities=24%  Similarity=0.191  Sum_probs=37.1

Q ss_pred             CcccccHHH--HHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEec
Q 038742          142 PAVVGFQST--LDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVS  203 (243)
Q Consensus       142 ~~~vG~~~~--~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  203 (243)
                      +.++|-.+.  ...+..+....  ....+-|+|..|+|||.|++++++.. .  .....+++++.+
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~-~--~~~~~~~~~~~~   73 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA-K--KRGYRVIYSSAD   73 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH-H--HTTCCEEEEEHH
T ss_pred             hccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh-c--cCccceEEechH
Confidence            345675433  33344444432  23447799999999999999999987 3  333345555543

>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=96.58  E-value=0.0012  Score=50.30  Aligned_cols=30  Identities=23%  Similarity=0.387  Sum_probs=25.4

Q ss_pred             hcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          158 LTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       158 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ....+-.+|-+.|++|+||||||+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            444567899999999999999999998754

>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=96.58  E-value=0.00062  Score=50.42  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|.|++|+||||+|+.+.+..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4577999999999999999876

>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=96.55  E-value=0.0006  Score=54.47  Aligned_cols=25  Identities=24%  Similarity=0.489  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|+|.|-||+||||+|-++....
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~L   26 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHH
Confidence            3678999999999999998887765

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.52  E-value=0.0032  Score=48.32  Aligned_cols=41  Identities=22%  Similarity=0.221  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCc
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRD  205 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~  205 (243)
                      .-+++-|+|.+|+|||+||.++..+.   ..+...++|++...+
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES   65 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC
Confidence            56799999999999999999999986   556666788876543

>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=96.50  E-value=0.00052  Score=54.41  Aligned_cols=46  Identities=24%  Similarity=0.273  Sum_probs=34.8

Q ss_pred             CcccccHHHHHHHHHHhc----C---------CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT----E---------EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++.|.++.+++|.+.+.    .         ...+-|-++|++|+|||+||+.+.+..
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh
Confidence            457888877666665542    1         135568899999999999999999976

>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=96.42  E-value=0.00069  Score=50.67  Aligned_cols=26  Identities=31%  Similarity=0.231  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..+|+|-|.-|+||||+++.+..+.
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            46699999999999999999998765

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.38  E-value=0.00098  Score=47.59  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.|+|.+|+|||||.+.+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6699999999999999987764

>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=96.38  E-value=0.007  Score=47.77  Aligned_cols=70  Identities=14%  Similarity=0.083  Sum_probs=49.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----------CCHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----------SSFHEKAQEI  231 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----------~~~~~~~~~l  231 (243)
                      .-+++-|.|..|+||||||..+....   +..=..++|+.....++++.     +++++.          .+.++....+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~---q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHH---HHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHH---hcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            46789999999999999998888766   23334689999999898765     455665          3445555555


Q ss_pred             HHHhhcCc
Q 038742          232 FKTMRNTK  239 (243)
Q Consensus       232 ~~~L~~kr  239 (243)
                      ...++.++
T Consensus       131 ~~l~~~~~  138 (269)
T d1mo6a1         131 DMLIRSGA  138 (269)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHhcCC
Confidence            44444443

>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=96.37  E-value=0.001  Score=49.40  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998764

>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=96.37  E-value=0.00081  Score=54.88  Aligned_cols=44  Identities=23%  Similarity=0.284  Sum_probs=32.5

Q ss_pred             CcccccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHh
Q 038742          142 PAVVGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      ++++|.+..+..|+-.+...+..-+-+.|.+|+||||||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            46899998777655444332334578999999999999998864

>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=96.35  E-value=0.0011  Score=49.58  Aligned_cols=25  Identities=24%  Similarity=0.450  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +++.|+|+|.+|+|||||.+.+.+.
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCC
Confidence            4678999999999999999999863

>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=96.35  E-value=0.0019  Score=47.02  Aligned_cols=34  Identities=32%  Similarity=0.574  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          152 DRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       152 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ..++.++.... .-|.|+|.+|+|||||...+-+.
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            45565554444 45779999999999999998766

>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=96.34  E-value=0.00096  Score=47.97  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|+|+|.+|+|||||.+.+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999998775

>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=96.31  E-value=0.00076  Score=51.17  Aligned_cols=26  Identities=42%  Similarity=0.694  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|+|||||.+.+..-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45689999999999999999998754

>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=96.30  E-value=0.002  Score=48.92  Aligned_cols=42  Identities=7%  Similarity=0.223  Sum_probs=34.4

Q ss_pred             ccHHHHHHHHHHhcCCC-ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          146 GFQSTLDRVWRCLTEEP-VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       146 G~~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+...+++.+.+..++ .+.+-++|+.|+||||+|+.+.+..
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            45667888888888876 4468999999999999999887753

>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=96.27  E-value=0.0013  Score=52.26  Aligned_cols=29  Identities=24%  Similarity=0.307  Sum_probs=23.6

Q ss_pred             cCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          159 TEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       159 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+..++|.+.|-||+||||+|-.+....
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHH
Confidence            34457888999999999999887777765

>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=96.26  E-value=0.0045  Score=47.07  Aligned_cols=25  Identities=20%  Similarity=0.314  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -..|+|-|.-|+||||+++.+.+..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            3579999999999999999999886

>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=96.20  E-value=0.0013  Score=51.19  Aligned_cols=26  Identities=35%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34589999999999999999997654

>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=96.18  E-value=0.0012  Score=51.06  Aligned_cols=26  Identities=31%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|+|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            45689999999999999999887743

>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=96.17  E-value=0.006  Score=45.93  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.|+|-|..|+||||+++.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999999999876

>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=96.15  E-value=0.0014  Score=50.70  Aligned_cols=26  Identities=35%  Similarity=0.340  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+.--.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            44689999999999999999997643

>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=96.14  E-value=0.0067  Score=47.86  Aligned_cols=68  Identities=16%  Similarity=0.097  Sum_probs=49.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----------CCHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----------SSFHEKAQEI  231 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----------~~~~~~~~~l  231 (243)
                      .-+++-|+|.+|+||||||..+.... .-.+  ..++|+.....+++.     ++++++.          .+.++....+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            45699999999999999999988876 3222  347899998888885     5677776          3455555555


Q ss_pred             HHHhhc
Q 038742          232 FKTMRN  237 (243)
Q Consensus       232 ~~~L~~  237 (243)
                      ...++.
T Consensus       128 ~~l~~~  133 (268)
T d1xp8a1         128 ELLVRS  133 (268)
T ss_dssp             HHHHTT
T ss_pred             HHHHhc
Confidence            555543

>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=96.14  E-value=0.0013  Score=51.26  Aligned_cols=26  Identities=35%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|+|||||++.+.--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            34689999999999999999998754

>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=96.10  E-value=0.001  Score=51.14  Aligned_cols=25  Identities=16%  Similarity=0.331  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.|+|-|+-|+||||+++.+....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999998865

>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=96.10  E-value=0.0015  Score=50.95  Aligned_cols=26  Identities=31%  Similarity=0.546  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-..++|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999998754

>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=96.09  E-value=0.0015  Score=51.42  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45689999999999999999997643

>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=96.09  E-value=0.0016  Score=52.68  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-+|||.|..|+||||+|+.+....
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL  104 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH
Confidence            46799999999999999999999876

>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=96.08  E-value=0.0016  Score=52.06  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45689999999999999999998754

>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=96.07  E-value=0.002  Score=49.58  Aligned_cols=26  Identities=19%  Similarity=0.376  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++.|+|=|.-|+||||+++.+.++.
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            36789999999999999999999875

>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=96.06  E-value=0.0016  Score=51.12  Aligned_cols=26  Identities=31%  Similarity=0.552  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc
Confidence            45689999999999999999998654

>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=96.05  E-value=0.0038  Score=46.78  Aligned_cols=23  Identities=30%  Similarity=0.813  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|-|.-|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999876

>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=96.05  E-value=0.0017  Score=50.62  Aligned_cols=26  Identities=27%  Similarity=0.607  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-..++|+|+.|.|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999997543

>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=96.04  E-value=0.0018  Score=50.42  Aligned_cols=26  Identities=35%  Similarity=0.289  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+.--.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44689999999999999999998754

>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=96.03  E-value=0.0017  Score=51.22  Aligned_cols=25  Identities=32%  Similarity=0.472  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +-.+++|+|+.|.|||||++.+.--
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            4568999999999999999999764

>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=96.01  E-value=0.0021  Score=46.97  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +..|+|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            567999999999999999999864

>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=96.00  E-value=0.0026  Score=51.54  Aligned_cols=46  Identities=28%  Similarity=0.465  Sum_probs=36.0

Q ss_pred             CcccccHHHHHHHHHHhcC------C---CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLTE------E---PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~~------~---~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++.+.+.+..      +   +..++..+|+.|+|||.||+.+.+..
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            3478998888888765531      1   35588899999999999999998764

>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=95.97  E-value=0.0019  Score=49.03  Aligned_cols=20  Identities=40%  Similarity=0.521  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~  184 (243)
                      +|||+|+.|+||||.|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998663

>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=95.97  E-value=0.002  Score=50.13  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -+++|+|+.|.|||||++.+..-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            378999999999999999998764

>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=95.97  E-value=0.002  Score=49.15  Aligned_cols=37  Identities=24%  Similarity=0.313  Sum_probs=27.3

Q ss_pred             ceEEEEE-cCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEe
Q 038742          163 VGIVGLH-GMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVV  202 (243)
Q Consensus       163 ~~vi~I~-G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~v  202 (243)
                      .+||+|+ |-||+||||+|..+.... ...+  ..++.|-.
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~l-a~~g--~~VlliD~   38 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVAL-AQLG--HDVTIVDA   38 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHH-HHTT--CCEEEEEC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHH-HhCC--CCEEEEeC
Confidence            3789999 899999999999988876 3222  23556643

>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=95.95  E-value=0.01  Score=45.39  Aligned_cols=49  Identities=22%  Similarity=0.282  Sum_probs=35.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccC----CCCCEEEEEEecCcccHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTS----NNFDFVIWEVVSRDLQLEKM  211 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i  211 (243)
                      .-+++-|.|.+|+||||+|.++..+. -..    ......+|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh-hchHHhcCCCceEEEEeccchhHHHHH
Confidence            46799999999999999999988764 111    12356788887776665443

>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=95.90  E-value=0.0021  Score=46.41  Aligned_cols=23  Identities=26%  Similarity=0.206  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||+..+.++.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988753

>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=95.90  E-value=0.0021  Score=50.02  Aligned_cols=26  Identities=42%  Similarity=0.500  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999998764

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.90  E-value=0.0031  Score=49.20  Aligned_cols=44  Identities=18%  Similarity=0.143  Sum_probs=34.1

Q ss_pred             ccccHHHHHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          144 VVGFQSTLDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       144 ~vG~~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +||....++++.+.+..  ..-.-|-|.|..|+|||++|+.++...
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            67887788888777754  222346888999999999999998764

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.89  E-value=0.0021  Score=46.48  Aligned_cols=21  Identities=24%  Similarity=0.503  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.++|.+|+|||||++.+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987764

>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=95.88  E-value=0.0025  Score=48.38  Aligned_cols=24  Identities=17%  Similarity=0.304  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|.|+|+.|+|||||.+.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999998864

>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=95.88  E-value=0.0021  Score=46.47  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            36799999999999999987653

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.88  E-value=0.0022  Score=46.87  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4779999999999999997765

>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=95.87  E-value=0.0022  Score=46.68  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .|+|+|.+|+|||||.+.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999754

>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=95.85  E-value=0.0024  Score=47.83  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +.|+|+|.+|+|||||...+.+.
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            47899999999999999999865

>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=95.84  E-value=0.0016  Score=47.95  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |+|+|.+|+|||||.+.+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998653

>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=95.84  E-value=0.0045  Score=47.16  Aligned_cols=47  Identities=13%  Similarity=0.074  Sum_probs=33.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCC----CCEEEEEEecCcccHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNN----FDFVIWEVVSRDLQLE  209 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~~~  209 (243)
                      .-+++-|.|.+|+|||||+.++.... .....    -...+|+.....++..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHHH
Confidence            46699999999999999998887653 11111    2457788776666533

>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=95.84  E-value=0.0025  Score=45.29  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||+..+-+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988753

>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=95.83  E-value=0.0018  Score=47.19  Aligned_cols=33  Identities=30%  Similarity=0.456  Sum_probs=24.1

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +++.+.- .+..-|.++|.+|+|||||...+...
T Consensus         3 ~~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3444432 34456789999999999999998664

>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=95.83  E-value=0.0022  Score=49.98  Aligned_cols=26  Identities=42%  Similarity=0.473  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34589999999999999999998754

>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=95.82  E-value=0.0025  Score=50.86  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..-+|||-|..|+|||||+..+....
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999887765

>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=95.80  E-value=0.0027  Score=46.51  Aligned_cols=24  Identities=38%  Similarity=0.569  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999875

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.78  E-value=0.0026  Score=46.11  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.0026  Score=45.90  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.++.
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987643

>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=95.76  E-value=0.0026  Score=48.00  Aligned_cols=21  Identities=48%  Similarity=0.551  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      -+|||.|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999998663

>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=95.74  E-value=0.0025  Score=50.09  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+.--.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            34589999999999999999998865

>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=95.74  E-value=0.0019  Score=47.67  Aligned_cols=22  Identities=45%  Similarity=0.703  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|+|+|.+|+|||||.+.+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998653

>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=95.73  E-value=0.0022  Score=47.05  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|+|+|.+|+|||||.+.+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.73  E-value=0.0025  Score=46.33  Aligned_cols=22  Identities=36%  Similarity=0.674  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||...+.++
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999987764

>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=95.72  E-value=0.0028  Score=46.10  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999988764

>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=95.72  E-value=0.003  Score=48.48  Aligned_cols=26  Identities=46%  Similarity=0.645  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++|.-|.|.-|.|||||.+.+....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            57899999999999999999998753

>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=95.71  E-value=0.002  Score=49.75  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44589999999999999999998753

>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=95.71  E-value=0.0026  Score=46.37  Aligned_cols=23  Identities=39%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|.++|.+|+|||||.+.+.+.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998665

>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=95.68  E-value=0.0048  Score=50.95  Aligned_cols=26  Identities=23%  Similarity=0.082  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-+.+-++|++|+|||++|..+.+..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999999987

>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=95.68  E-value=0.0029  Score=46.07  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998875

>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=95.67  E-value=0.013  Score=45.91  Aligned_cols=68  Identities=19%  Similarity=0.110  Sum_probs=47.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----------CCHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----------SSFHEKAQEI  231 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----------~~~~~~~~~l  231 (243)
                      .-+++-|+|.+|+||||||-.+.... .-.+  ..++|+.....++...     ++.++.          .+.++..+.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~-q~~g--~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAA-QREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH-HcCC--CEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            35699999999999999999998886 3222  3578998888888753     455555          3344454555


Q ss_pred             HHHhhc
Q 038742          232 FKTMRN  237 (243)
Q Consensus       232 ~~~L~~  237 (243)
                      ...++.
T Consensus       125 ~~l~~~  130 (263)
T d1u94a1         125 DALARS  130 (263)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            554443

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.66  E-value=0.003  Score=45.77  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.++.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37799999999999999988754

>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=95.65  E-value=0.0033  Score=47.98  Aligned_cols=24  Identities=33%  Similarity=0.652  Sum_probs=21.7

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLH-GMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~-G~gGiGKTtLa~~v~~~~  187 (243)
                      +||+|+ +-||+||||+|..+....
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l   27 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL   27 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH
Confidence            689999 779999999999998876

>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=95.62  E-value=0.0031  Score=45.81  Aligned_cols=23  Identities=35%  Similarity=0.332  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            47899999999999999987653

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.62  E-value=0.0032  Score=45.89  Aligned_cols=22  Identities=41%  Similarity=0.529  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||.+.+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999987654

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.61  E-value=0.0032  Score=45.56  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|-+|+|||||++.+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987753

>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=95.58  E-value=0.0035  Score=47.07  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-|.|+|.+|+|||||.+.+.+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999998753

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.58  E-value=0.0033  Score=45.47  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988765

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.0034  Score=45.50  Aligned_cols=22  Identities=41%  Similarity=0.483  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>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=95.56  E-value=0.0035  Score=45.85  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|..|+|||||++.+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999988664

>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=95.55  E-value=0.0021  Score=51.36  Aligned_cols=26  Identities=23%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +..||||.|..|.||||+++.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45699999999999999999887765

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.0035  Score=45.53  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||++.+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988653

>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=95.53  E-value=0.0035  Score=45.66  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987654

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.53  E-value=0.0035  Score=45.76  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      --|.|+|.+|+|||||++.+.++.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCC
Confidence            357899999999999999887653

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0036  Score=45.54  Aligned_cols=22  Identities=41%  Similarity=0.507  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999987765

>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=95.51  E-value=0.016  Score=44.15  Aligned_cols=49  Identities=14%  Similarity=0.084  Sum_probs=35.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcc---cCCCCCEEEEEEecCcccHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLH---TSNNFDFVIWEVVSRDLQLEK  210 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~~~  210 (243)
                      .-+++-|+|.+|+|||++|.++..+...   ....+..+.|+.....++...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHH
Confidence            4679999999999999999998765311   123456788888777666443

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0032  Score=46.45  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4789999999999999988764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0036  Score=45.26  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||.+.+.++.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988753

>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=95.49  E-value=0.0046  Score=47.57  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+|||.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999997753

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.48  E-value=0.0038  Score=45.16  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-|.|+|..|+|||||.+.+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            46889999999999999997664

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.48  E-value=0.0038  Score=45.30  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |.++|.+|+|||+|.+.+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999988764

>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=95.46  E-value=0.0029  Score=48.94  Aligned_cols=25  Identities=36%  Similarity=0.521  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-.+++|+|+.|.|||||.+.+..-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3468999999999999999999763

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=95.43  E-value=0.0025  Score=46.61  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ++..-|+|+|.+++|||||.+++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34677999999999999999988553

>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=95.42  E-value=0.0045  Score=45.97  Aligned_cols=48  Identities=13%  Similarity=0.102  Sum_probs=31.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCC----CCCEEEEEEecCcccHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSN----NFDFVIWEVVSRDLQLEK  210 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~  210 (243)
                      .-.++-|.|.+|+||||||.++..+. ....    .+....++..........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPER   73 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH-HHhhccccccceehhhhhhhhhHHHH
Confidence            45699999999999999999988764 2221    233455555554444433

>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=95.39  E-value=0.004  Score=46.36  Aligned_cols=23  Identities=35%  Similarity=0.484  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999887653

>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=95.39  E-value=0.0085  Score=49.40  Aligned_cols=46  Identities=20%  Similarity=0.187  Sum_probs=34.5

Q ss_pred             CcccccHHHHHHHHHHhc------------------------------CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          142 PAVVGFQSTLDRVWRCLT------------------------------EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       142 ~~~vG~~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..++|.++.++.+-..+-                              +-...-+-.+|+.|+|||.||+.+....
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            458899988777765441                              1145568888999999999999987654

>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=95.38  E-value=0.0025  Score=49.64  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.+++|+|+.|.|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34689999999999999999998743

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0045  Score=44.80  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||+|.+.+.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999987654

>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=95.32  E-value=0.0047  Score=44.51  Aligned_cols=23  Identities=30%  Similarity=0.341  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36789999999999999886653

>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=95.32  E-value=0.0044  Score=44.33  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|+++|.+|+|||||.+.+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999754

>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=95.28  E-value=0.0026  Score=49.95  Aligned_cols=26  Identities=35%  Similarity=0.493  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-..++|+|..|.|||||++.+..-.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            45689999999999999999987543

>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=95.27  E-value=0.0046  Score=45.41  Aligned_cols=22  Identities=41%  Similarity=0.526  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|+|+|..|+|||||.+.+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4799999999999999999764

>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=95.23  E-value=0.0074  Score=48.85  Aligned_cols=24  Identities=33%  Similarity=0.634  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .++-++|++|+|||.||+.+....
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            355568999999999999999976

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.0053  Score=44.48  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|..|+|||||...+.+..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999877653

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=95.20  E-value=0.0069  Score=43.90  Aligned_cols=24  Identities=38%  Similarity=0.469  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +.-|.++|.+|+|||||++.+.++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            456889999999999999997654

>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=95.19  E-value=0.006  Score=44.79  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|-+|+|||||.+.+-.+.
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999986654

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.17  E-value=0.0055  Score=45.06  Aligned_cols=23  Identities=35%  Similarity=0.390  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.++.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58899999999999999877653

>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=95.15  E-value=0.0066  Score=44.30  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47789999999999999887763

>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=95.12  E-value=0.054  Score=41.90  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+.-|+|.+|+|||||+..+.-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            467799999999999998887654

>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=95.11  E-value=0.0059  Score=44.24  Aligned_cols=22  Identities=45%  Similarity=0.599  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999987664

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=95.11  E-value=0.0058  Score=44.42  Aligned_cols=31  Identities=19%  Similarity=0.293  Sum_probs=23.1

Q ss_pred             HHhcCC-CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          156 RCLTEE-PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       156 ~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.+.+. .++ |.++|.+|+|||||.+.+.+..
T Consensus         5 ~~~~~~k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           5 SKIFGNKEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHTTCCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhCCCeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            334444 345 6699999999999999997654

>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=95.10  E-value=0.006  Score=44.58  Aligned_cols=21  Identities=33%  Similarity=0.627  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |.++|.+|+|||||.+.+-+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.09  E-value=0.0062  Score=44.74  Aligned_cols=22  Identities=45%  Similarity=0.554  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||++.+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>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=95.08  E-value=0.0058  Score=45.06  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.|+|.+|+|||||.+.+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999877653

>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=95.03  E-value=0.0059  Score=44.48  Aligned_cols=23  Identities=39%  Similarity=0.355  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|.++|.+|+|||||++.+...
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999988653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.02  E-value=0.0064  Score=44.23  Aligned_cols=23  Identities=39%  Similarity=0.494  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      --|.++|.+|+|||||++.+.++
T Consensus         7 ~KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           7 FKVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            34889999999999999877654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.01  E-value=0.0061  Score=45.12  Aligned_cols=19  Identities=42%  Similarity=0.606  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 038742          165 IVGLHGMGGVGKTTLLTQI  183 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v  183 (243)
                      -|.++|.+|+|||||+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999998

>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=94.96  E-value=0.026  Score=40.64  Aligned_cols=27  Identities=37%  Similarity=0.365  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          161 EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       161 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+-.+|.+.|.=|+||||+++.+....
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            345689999999999999999999986

>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=94.92  E-value=0.052  Score=40.41  Aligned_cols=70  Identities=7%  Similarity=0.076  Sum_probs=45.6

Q ss_pred             HHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhhc-ccCCCCCEEEEEEe-cCcccHHHHHHHHHHHhcC
Q 038742          150 TLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSFL-HTSNNFDFVIWEVV-SRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       150 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~-~v~~~F~~~~wv~v-s~~~~~~~i~~~I~~~l~~  221 (243)
                      .++.+.+++..+..+-+-++|.+|+||||+|..+.+... ....|-|. .++.- +....++.+ +++.+.+..
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~I-R~i~~~~~~   73 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNY   73 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTS
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHH-HHHHHHHhh
Confidence            456677777778899999999999999999999887651 11233454 33432 333445554 346555543

>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=94.92  E-value=0.011  Score=43.23  Aligned_cols=36  Identities=22%  Similarity=0.260  Sum_probs=25.1

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          152 DRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       152 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.+.|.. .+---|.++|.+|+|||||.+.+.+..
T Consensus         5 ~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~~   41 (182)
T d1moza_           5 SSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGE   41 (182)
T ss_dssp             HHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCSE
T ss_pred             HHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhcCC
Confidence            344444433 344456699999999999999986543

>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=94.86  E-value=0.0039  Score=45.37  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|.+|+|||||.+.+.++
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999987654

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.85  E-value=0.0077  Score=43.67  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|..|+|||||++.+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999988753

>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=94.75  E-value=0.0082  Score=44.02  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|..|+|||+|++.+.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887753

>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=94.75  E-value=0.0028  Score=45.33  Aligned_cols=23  Identities=35%  Similarity=0.395  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|+++|.+|+|||||.+.+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37999999999999999998653

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.72  E-value=0.0092  Score=43.92  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||+|...+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999986654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.70  E-value=0.0088  Score=43.80  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||||.+.+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999887754

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.68  E-value=0.019  Score=47.16  Aligned_cols=53  Identities=19%  Similarity=0.242  Sum_probs=33.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESI  215 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I  215 (243)
                      -++..|.|.+|.||||++..+.....+....=..++.++.+..-....+...+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            35788999999999999876655431112222346777776554555555444

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.65  E-value=0.0089  Score=44.20  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|.++|.+|+|||+|+..+.+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999998876654

>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=94.57  E-value=0.012  Score=44.67  Aligned_cols=26  Identities=23%  Similarity=0.371  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-.++-|.|.+|+|||++|..+..+.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998765

>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=94.47  E-value=0.014  Score=43.54  Aligned_cols=24  Identities=21%  Similarity=0.113  Sum_probs=21.2

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMG-GVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~g-GiGKTtLa~~v~~~~  187 (243)
                      +.+-|.|.| |+||||++-.+....
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            457799998 999999999998886

>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=94.44  E-value=0.019  Score=43.93  Aligned_cols=34  Identities=32%  Similarity=0.593  Sum_probs=26.4

Q ss_pred             HHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ++.|.++|.+   +...++|..|+|||||.+.+..+.
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            5566666643   456789999999999999997653

>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=94.37  E-value=0.057  Score=41.90  Aligned_cols=55  Identities=16%  Similarity=0.139  Sum_probs=35.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF  221 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~  221 (243)
                      -.++.|.|.+|+||||++..+..+. -....+. +++++  -+.+...+...++.....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~~-v~~~s--~E~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQW-GTAMGKK-VGLAM--LEESVEETAEDLIGLHNR   89 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH-HHTSCCC-EEEEE--SSSCHHHHHHHHHHHHTT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhh-hhhcccc-eeEee--eccchhhHHhHHHHHhhc
Confidence            3578899999999999999887654 2233333 33443  345566666666654433

>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=94.35  E-value=0.021  Score=44.44  Aligned_cols=39  Identities=26%  Similarity=0.313  Sum_probs=28.1

Q ss_pred             HHHHHHHHHhcCC--CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTEE--PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..+.++...+...  ..--|.++|..|+|||||.+.+..+.
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            3444555555442  34467799999999999999999763

>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=94.32  E-value=0.0066  Score=44.14  Aligned_cols=22  Identities=36%  Similarity=0.475  Sum_probs=8.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|.++|-+|+|||||...+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999866653

>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=94.28  E-value=0.014  Score=44.54  Aligned_cols=23  Identities=48%  Similarity=0.538  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      ++|+|+|-.+.|||||+..+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            57999999999999999988654

>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=94.02  E-value=0.016  Score=43.93  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-|.++|.+|+|||||++.+....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999986543

>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=93.94  E-value=0.015  Score=42.58  Aligned_cols=21  Identities=33%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      -|+|+|.++.|||||.+.+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999999874

>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=93.88  E-value=0.078  Score=41.59  Aligned_cols=64  Identities=22%  Similarity=0.359  Sum_probs=46.9

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcc-cHHHHHHHHHHH
Q 038742          153 RVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDL-QLEKMQESIAKK  218 (243)
Q Consensus       153 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~I~~~  218 (243)
                      ..++.|.. .+-.-++|.|-.|+|||+|+..+.++.  .+.+=++++++-+.+.. ...++.+++.+.
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~--~~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHH--TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHH--HhhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            35666655 244569999999999999999998873  13344677888888764 467788888764

>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=93.76  E-value=0.02  Score=45.20  Aligned_cols=26  Identities=23%  Similarity=0.166  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +++-|+|+|-+|.|||||+..+....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            57889999999999999999997653

>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=93.57  E-value=0.022  Score=42.80  Aligned_cols=23  Identities=26%  Similarity=0.183  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      .-+++-|.|.+|+|||+||.++.
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHH
Confidence            46689999999999999997643

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.54  E-value=0.028  Score=44.33  Aligned_cols=28  Identities=21%  Similarity=0.449  Sum_probs=25.0

Q ss_pred             CCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          160 EEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       160 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +.++.||+|+|.-+.||+||++.++...
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            4579999999999999999999998754

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=93.52  E-value=0.027  Score=45.49  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      |-|.|..|+||||+++.+....
T Consensus       169 ili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEeeccccchHHHHHHhhhc
Confidence            7889999999999999998864

>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=93.31  E-value=0.025  Score=44.44  Aligned_cols=22  Identities=41%  Similarity=0.543  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 038742          163 VGIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      +|-|+|+|-.|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            5779999999999999999884

>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=93.14  E-value=0.026  Score=47.65  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +=|-++|+.|+|||.||+.+..-.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999999865

>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=92.84  E-value=0.057  Score=43.68  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          163 VGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       163 ~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-.|.|=|.-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            3467788999999999999999986

>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=92.84  E-value=0.19  Score=39.60  Aligned_cols=35  Identities=26%  Similarity=0.132  Sum_probs=29.6

Q ss_pred             HHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          153 RVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       153 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .+++.|.. .+-.-++|.|..|+|||||+..+.+..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            57887776 356789999999999999999999875

>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=92.49  E-value=0.039  Score=40.42  Aligned_cols=23  Identities=26%  Similarity=0.245  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-|.|.|..|+||||||..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45789999999999999987764

>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=92.24  E-value=0.084  Score=43.70  Aligned_cols=43  Identities=28%  Similarity=0.402  Sum_probs=33.3

Q ss_pred             cccHHHHHHHHHHhcCCCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          145 VGFQSTLDRVWRCLTEEPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       145 vG~~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|.....-..++.+....-.+|-|.|+.|.||||.+..+.+..
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            4665554445555666667899999999999999999998865

>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=92.13  E-value=0.037  Score=43.43  Aligned_cols=23  Identities=30%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -|||||++.+|||||-+.+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999887653

>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=92.01  E-value=0.045  Score=40.12  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-|.|.|..|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            45788999999999999887764

>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=91.78  E-value=0.053  Score=39.41  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      .-|-|.|..|+||||||..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45789999999999999887765

>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=91.71  E-value=0.044  Score=42.91  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ..--|+|+|++.+||+||++.+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34569999999999999999999864

>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=91.69  E-value=0.014  Score=42.59  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      +..|+|+.|+||||+..+|+--
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4567899999999999999754

>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=91.64  E-value=0.049  Score=40.76  Aligned_cols=19  Identities=42%  Similarity=0.489  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~  184 (243)
                      |+|+|-++.|||||+.++.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            8999999999999999985

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=91.57  E-value=0.046  Score=43.34  Aligned_cols=22  Identities=41%  Similarity=0.656  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~  186 (243)
                      -|||+|.+.+|||||-+.+-+.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4999999999999999999865

>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=91.37  E-value=0.049  Score=43.47  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038742          166 VGLHGMGGVGKTTLLTQINNS  186 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~~  186 (243)
                      |||+|.+.+|||||-+.+-+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            899999999999999998553

>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=91.04  E-value=0.054  Score=44.94  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      --|+|+|.+|+|||||.+.+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3489999999999999999975

>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=90.98  E-value=0.06  Score=43.51  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .|+|=|.-|+||||+++.+.+..
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47888999999999999999876

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.97  E-value=0.07  Score=43.26  Aligned_cols=34  Identities=18%  Similarity=0.205  Sum_probs=26.3

Q ss_pred             HHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHh
Q 038742          152 DRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       152 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      +.+.++... +++|=|+|+|-.|.|||||+-.+..
T Consensus         5 ~~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           5 DQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            344454444 4688899999999999999998853

>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=90.60  E-value=0.058  Score=43.53  Aligned_cols=24  Identities=29%  Similarity=0.146  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      -.|+|=|.-|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            458889999999999999997754

>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=90.32  E-value=0.032  Score=42.76  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhh
Q 038742          165 IVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...++|..|+|||||.+.+..+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            34588999999999999998764

>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=90.30  E-value=0.13  Score=38.39  Aligned_cols=39  Identities=13%  Similarity=0.074  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          149 STLDRVWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       149 ~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      .-+..+..+|.. .+-.-+.++|+++.|||++|..+.+-.
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            344555566654 367889999999999999999887765

>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=90.15  E-value=0.22  Score=33.97  Aligned_cols=51  Identities=14%  Similarity=0.136  Sum_probs=32.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHh
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKI  219 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l  219 (243)
                      +.++.-|+++.|.|||+++-..+.+.       ..++.+.+....-.....+.+.+.+
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~-------~~~vli~~P~~~l~~q~~~~~~~~~   57 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ-------GYKVLVLNPSVAATLGFGAYMSKAH   57 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT-------TCCEEEEESCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc-------CCcEEEEcChHHHHHHHHHHHHHHh
Confidence            35677889999999999987666543       2356666665444444444444433

>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=89.15  E-value=0.19  Score=39.35  Aligned_cols=53  Identities=9%  Similarity=0.062  Sum_probs=36.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHhhhcccCCCCCEEEEEEecCccc-HHHHHHHHHH
Q 038742          162 PVGIVGLHGMGGVGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQ-LEKMQESIAK  217 (243)
Q Consensus       162 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~I~~  217 (243)
                      +-.-++|+|..|+|||+|+..+-...   ..+-+.++++.+.+... ..++..++.+
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~  119 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQE  119 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGG
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhcc
Confidence            34458999999999999998765543   44556778888776543 4445544433

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.12  E-value=0.39  Score=37.65  Aligned_cols=65  Identities=11%  Similarity=0.084  Sum_probs=39.9

Q ss_pred             HHHHhcC-CCceEEEEEcCCCCcHHHHHHHHHhhhcc----cCCCC-CEEEEEEecCccc-HHHHHHHHHHH
Q 038742          154 VWRCLTE-EPVGIVGLHGMGGVGKTTLLTQINNSFLH----TSNNF-DFVIWEVVSRDLQ-LEKMQESIAKK  218 (243)
Q Consensus       154 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----v~~~F-~~~~wv~vs~~~~-~~~i~~~I~~~  218 (243)
                      .++.|.. .+-.-++|.|-.|+|||+|+..+......    ....= ..++.+-+.+... ..++...+...
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~  129 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDA  129 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHT
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhccc
Confidence            4666654 34566899999999999998877655311    11111 1346666766553 45666665543

>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=88.71  E-value=0.079  Score=41.38  Aligned_cols=16  Identities=25%  Similarity=0.266  Sum_probs=13.1

Q ss_pred             EEEEEcCCCCcHHHHH
Q 038742          165 IVGLHGMGGVGKTTLL  180 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa  180 (243)
                      .+-|.|.+|.||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            3568899999999764

>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=88.05  E-value=0.31  Score=37.77  Aligned_cols=37  Identities=19%  Similarity=0.189  Sum_probs=28.2

Q ss_pred             HHHHHHHhcC--CCceEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          151 LDRVWRCLTE--EPVGIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       151 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      ...+..+|..  .+-..+-++|+|+.|||+++..+..-.
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445556643  367788999999999999999988754

>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=88.03  E-value=0.12  Score=40.67  Aligned_cols=16  Identities=38%  Similarity=0.468  Sum_probs=13.1

Q ss_pred             EEEEcCCCCcHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLT  181 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~  181 (243)
                      +-|.|.+|+||||.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            5688999999997653

>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=87.52  E-value=0.16  Score=37.55  Aligned_cols=20  Identities=45%  Similarity=0.498  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 038742          166 VGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~~  185 (243)
                      |+|.|-.+.|||||+.++-.
T Consensus         6 i~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            89999999999999998853

>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=87.27  E-value=0.17  Score=37.04  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      -|+|.|-.+.|||||+.++-.
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            379999999999999999953

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.68  E-value=0.16  Score=39.72  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      ++-.|+|..|+||||+..++.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            467899999999999988873

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=85.34  E-value=0.24  Score=36.52  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      -|+|+|-...|||||+..+-.
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            499999999999999999863

>d1w1wa_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.90  E-value=0.26  Score=40.01  Aligned_cols=21  Identities=24%  Similarity=0.551  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 038742          164 GIVGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~  184 (243)
                      .+-.|+|..|.||||+..++.
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            456799999999999999985

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=83.61  E-value=0.32  Score=39.90  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhh
Q 038742          164 GIVGLHGMGGVGKTTLLTQINNSF  187 (243)
Q Consensus       164 ~vi~I~G~gGiGKTtLa~~v~~~~  187 (243)
                      +-+.|+|..|+|||++++.+....
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHH
Confidence            347899999999999987665543

>d1r0ka2 c.2.1.3 (A:3-126,A:265-290) 1-deoxy-D-xylulose-5-phosphate reductoisomerase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: 1-deoxy-D-xylulose-5-phosphate reductoisomerase
species: Zymomonas mobilis [TaxId: 542]

Probab=83.40  E-value=0.92  Score=31.78  Aligned_cols=67  Identities=13%  Similarity=0.191  Sum_probs=40.7

Q ss_pred             ceEEEEEcCCC-CcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----CCHHHHHHHHHHHhhc
Q 038742          163 VGIVGLHGMGG-VGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----SSFHEKAQEIFKTMRN  237 (243)
Q Consensus       163 ~~vi~I~G~gG-iGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----~~~~~~~~~l~~~L~~  237 (243)
                      .+-|+|.|-.| ||++||-  |.+..   .+.|....-.+ .+  +.. .+.+.+..+..    -........+...+.+
T Consensus         2 pK~I~IlGsTGSIG~~tL~--Vi~~~---~d~f~v~~lsa-~~--N~~-~L~~q~~ef~Pk~v~i~d~~~~~~l~~~~~~   72 (150)
T d1r0ka2           2 PRTVTVLGATGSIGHSTLD--LIERN---LDRYQVIALTA-NR--NVK-DLADAAKRTNAKRAVIADPSLYNDLKEALAG   72 (150)
T ss_dssp             CEEEEEETTTSHHHHHHHH--HHHHT---GGGEEEEEEEE-SS--CHH-HHHHHHHHTTCSEEEESCGGGHHHHHHHTTT
T ss_pred             CcEEEEECCCcHHHHHHHH--HHHcC---CCCcEEEEEEe-CC--CHH-HHHHHHHhhccccceeccHHHHHHHHHHhhh
Confidence            57899999999 9999996  55544   45787666544 22  444 44555566666    1222333455555554


Q ss_pred             C
Q 038742          238 T  238 (243)
Q Consensus       238 k  238 (243)
                      +
T Consensus        73 ~   73 (150)
T d1r0ka2          73 S   73 (150)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=83.24  E-value=0.38  Score=36.02  Aligned_cols=19  Identities=26%  Similarity=0.296  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHH
Q 038742          166 VGLHGMGGVGKTTLLTQIN  184 (243)
Q Consensus       166 i~I~G~gGiGKTtLa~~v~  184 (243)
                      |+|.|-.+.|||||+.++.
T Consensus         6 i~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           6 LIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEecCCCCHHHHHHHHH
Confidence            8899999999999998773

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=82.63  E-value=0.42  Score=35.88  Aligned_cols=21  Identities=24%  Similarity=0.177  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038742          165 IVGLHGMGGVGKTTLLTQINN  185 (243)
Q Consensus       165 vi~I~G~gGiGKTtLa~~v~~  185 (243)
                      -|+|+|-.+.|||||+.++..
T Consensus        11 ~i~viGHVd~GKSTL~~~Ll~   31 (222)
T d1zunb3          11 RFLTCGNVDDGKSTLIGRLLH   31 (222)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            478899999999999999854

>d1q0qa2 c.2.1.3 (A:1-125,A:275-300) 1-deoxy-D-xylulose-5-phosphate reductoisomerase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: 1-deoxy-D-xylulose-5-phosphate reductoisomerase
species: Escherichia coli [TaxId: 562]

Probab=80.34  E-value=2.7  Score=29.29  Aligned_cols=64  Identities=13%  Similarity=0.126  Sum_probs=38.9

Q ss_pred             eEEEEEcCCC-CcHHHHHHHHHhhhcccCCCCCEEEEEEecCcccHHHHHHHHHHHhcC----CCHHHHHHHHHHHhh
Q 038742          164 GIVGLHGMGG-VGKTTLLTQINNSFLHTSNNFDFVIWEVVSRDLQLEKMQESIAKKIAF----SSFHEKAQEIFKTMR  236 (243)
Q Consensus       164 ~vi~I~G~gG-iGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~I~~~l~~----~~~~~~~~~l~~~L~  236 (243)
                      +-|+|.|-.| +|++||-  |....   .++|+...-.+ .  -+.+. +.+.+..+.+    -..+.....+...|.
T Consensus         2 K~I~IlGsTGSIG~~tL~--Vi~~~---~d~f~v~~Lsa-~--~N~~~-L~~q~~~f~pk~v~i~d~~~~~~l~~~l~   70 (151)
T d1q0qa2           2 KQLTILGSTGSIGCSTLD--VVRHN---PEHFRVVALVA-G--KNVTR-MVEQCLEFSPRYAVMDDEASAKLLKTMLQ   70 (151)
T ss_dssp             EEEEEETTTSHHHHHHHH--HHHHC---TTTEEEEEEEE-S--SCHHH-HHHHHHHHCCSEEEESSHHHHHHHHHHHH
T ss_pred             CeEEEEcCCcHHHHHHHH--HHHhC---CCCcEEEEEEe-c--CcHHH-HHHHHHHHhhcccccccHHHHHHHHHHhh
Confidence            4589999999 9999997  44544   67788776544 3  24444 4444455665    222333344555553