Citrus Sinensis ID: 043249

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------
Protein Sequence
MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccEEEEEccccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccEEEEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHccccccEEcccccccccccccccccEccHHHHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHcccccHHHccccHHHHHHHHHHHHHcccEEEEEcccccccccHHHccccccccc
Coil and Loop (DISEMBL)
mggiistffsadtirpilfYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLaeqqprnrrtptvELWFRRVEEIETKVETLQQERDQEIDRLclggfcskdlissydFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEqkknngiiglygmggigktTLLKQVNnkfcseehdfDVVIWSVVSREPNLMQIQEDIgkrigfstdswqgksFEERASDITNTLKHKKFVLLSDDiweseidltklgvplltld
Flexible Loop (DISEMBL)
mggiistffsadtiRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKkldllnkvrlaeqqprnrrtptvelwfrRVEEIETKVETLQQERDQEIDRLCLGGFCSKDlissydfgkkvEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLlsddiweseidltklgvplltld
Low Complexity Region (SEG)
MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGkkveklkeeviklwekGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNgiiglygmggigKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD
Disordered region (IsUnstruct)
***IISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA*********PTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLL***
Disordered Region (DISOPRED)
MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRL*********TPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWE***************************GQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGF**************SDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLL***
Disordered Region (DISEMBL)
MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD
Disordered Region (DISPRO)
*GGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLL***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNxxxxxxxxxxxxxxxxxxxxxVRLAEQQPRNRRTPTxxxxxxxxxxxxxxxxxxxxxxxxxxxxLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD
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	287	2.2.26 [Sep-21-2011]
Q8L3R3	885	Disease resistance protei	yes	no	0.954	0.309	0.418	1e-51
Q8RXS5	888	Probable disease resistan	no	no	0.965	0.311	0.408	2e-49
O64973	889	Disease resistance protei	no	no	0.979	0.316	0.396	6e-47
P60838	894	Probable disease resistan	no	no	0.954	0.306	0.397	2e-46
P60839	884	Probable disease resistan	no	no	0.940	0.305	0.396	1e-45
Q9C8T9	898	Putative disease resistan	no	no	0.878	0.280	0.402	1e-44
Q940K0	889	Probable disease resistan	no	no	0.958	0.309	0.397	5e-44
O22727	967	Probable disease resistan	no	no	0.961	0.285	0.386	5e-44
O82484	892	Putative disease resistan	no	no	0.940	0.302	0.375	2e-42
O64789	925	Probable disease resistan	no	no	0.871	0.270	0.406	2e-42

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

 Score =  203 bits (516), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 120/287 (41%), Positives = 168/287 (58%), Gaps = 13/287 (4%)

Query: 1   MGGIISTFFSADT-IRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG +S   S D  +     ++     YI  L  NL  LQ     L AK+ D+  ++   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R++ IE +   L    + EI RLCL GFCSK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVA----MAVDRTIVGQESILDQVWRCITEQK 175
             L  EV     +G + + V++ V E A +A    + +  TIVGQ+S+LD+VW C+ E K
Sbjct: 121 IVLLREV-----EGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDK 175

Query: 176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG 235
               I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ+ IG+++G
Sbjct: 176 V--WIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLG 233

Query: 236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
               +W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 234 LVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVELKVIGVP 279

Disease resistance (R) protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score =  196 bits (498), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 116/284 (40%), Positives = 176/284 (61%), Gaps = 7/284 (2%)

Query: 1   MGGIISTFFSADTI-RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG +S   S D + + +   +     YI GL+ NL  LQ   E +  ++ DLL K+ L+
Sbjct: 1   MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKI-LS 59

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E++   +R   V+ W  +VE I  +V  L + R  ++ RLCL GFCSK+L+SSY +GK+V
Sbjct: 60  EERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRV 119

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNG 179
            K+ EEV  L  +G+    V E V + A V     R +V  + +L+  W  + E +   G
Sbjct: 120 MKMIEEVEVLRYQGD-FAVVAERV-DAARVEERPTRPMVAMDPMLESAWNRLMEDEI--G 175

Query: 180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
           I+GL+GMGG+GKTTLL  +NN+F     +FD+VIW VVS+E  + +IQ++I +++    +
Sbjct: 176 ILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNE 235

Query: 240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPL 283
            W+ K+ + +AS+I N LKHK+FVLL DDIW S++DLT++GVP 
Sbjct: 236 KWKQKTEDIKASNIYNVLKHKRFVLLLDDIW-SKVDLTEVGVPF 278

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 =  187 bits (476), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 115/290 (39%), Positives = 160/290 (55%), Gaps = 9/290 (3%)

Query: 1   MGGIISTFFSADTIRPI---LFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVR 57
           MGG  S     D +      L  V G   YI  L  NL  LQ     L A++ D++ ++ 
Sbjct: 1   MGGCFSVSLPCDQVVSQFSQLLCVRG--SYIHNLSKNLASLQKAMRMLKARQYDVIRRLE 58

Query: 58  LAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGK 117
             E   R +R   V++W   V  I+ +   L +  + E+ RLCL GFCSKDL  SY +GK
Sbjct: 59  TEEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGK 118

Query: 118 KVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKN 177
           +V  + +EV  L  +G     V E  P      +    TIVGQE +L++ W  + E    
Sbjct: 119 RVIMMLKEVESLSSQG-FFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMED--G 175

Query: 178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS 237
           +GI+GLYGMGG+GKTTLL ++NNKF   +  FDVVIW VVSR   + +IQ DI +++G  
Sbjct: 176 SGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLG 235

Query: 238 TDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD 287
              W  K+  + A DI N L+ +KFVLL DDIWE +++L  +GVP  + D
Sbjct: 236 GMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWE-KVNLKAVGVPYPSKD 284

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

 Score =  186 bits (472), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 114/287 (39%), Positives = 163/287 (56%), Gaps = 13/287 (4%)

Query: 1   MGGIISTFFSADTI-----RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNK 55
           MG  ++  FS D +     + +   VG    YI  L  N+  ++ + E L  K+ D+  +
Sbjct: 1   MGACLTLSFSCDEVVNQISQGLCINVG----YICELSKNVVAMKKDMEVLKKKRDDVKRR 56

Query: 56  VRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDF 115
           V + E   R  R   V+ W   V  +E K   L    D E+ RLCL GFCSK++  SY +
Sbjct: 57  VDIEEFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLY 116

Query: 116 GKKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQK 175
           GK+V  + +E+  L  +G+    V    P      M +  TIVGQE++L++VW  +TE  
Sbjct: 117 GKRVVLMLKEIESLSSQGD-FDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTED- 174

Query: 176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG 235
             + I+GLYGMGG+GKTTLL ++NNKF  +   F VVIW VVS+ P++ +IQ DIGKR+ 
Sbjct: 175 -GDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLD 233

Query: 236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
              + W   +  +RA DI N L  +KFVLL DDIWE +++L  LGVP
Sbjct: 234 LGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWE-KVNLEVLGVP 279

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  183 bits (465), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 115/290 (39%), Positives = 173/290 (59%), Gaps = 20/290 (6%)

Query: 1   MGGIISTFFSADTIRPILFYVGG----EAKYIWGLKGNLDDLQTETENLIAKKLDLLNKV 56
           MGG +S   S D +   L ++G     +  YI  +K NL  L+   E+L A + DLL KV
Sbjct: 1   MGGCVSVQVSCDQL---LNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKV 57

Query: 57  RLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFG 116
           + AE+    +R   +++W +RV+ IE++   L   R  E+ RLC  G  S++L  SYD+G
Sbjct: 58  QTAEEGGL-QRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYG 116

Query: 117 KKVEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDR----TIVGQESILDQVWRCIT 172
           ++V  +   V  L  KG     ++E V   A  A+  +R    TIVGQE+IL++ W  + 
Sbjct: 117 RRVFLMLNIVEDLKSKG-----IFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLM 171

Query: 173 EQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK 232
           +      I+GLYGMGG+GKTTLL Q+NN+FC  +   ++VIW VVS +  + +IQ++IG+
Sbjct: 172 DD--GTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGE 229

Query: 233 RIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
           +IGF    W  KS  ++A DI N L  K+FVLL DDIW+  ++LT++G+P
Sbjct: 230 KIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIWK-RVELTEIGIP 278

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  180 bits (456), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 108/268 (40%), Positives = 158/268 (58%), Gaps = 16/268 (5%)

Query: 24  EAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRT-PTVELWFRRVEEIE 82
           +  Y   L+ NL  L+T  E L AK+ DLL K  L  ++ R  +T   +++W  RVE IE
Sbjct: 23  KVSYTHNLEKNLVALETTMEELKAKRDDLLRK--LKREEDRGLQTLGEIKVWLNRVETIE 80

Query: 83  TKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEG 142
           ++V  L   R+ E+ RLCL GFCSK L +SY +GK V       +KL E  +  + V+E 
Sbjct: 81  SRVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSV------FLKLREVEKLERRVFEV 134

Query: 143 VPEGAAVA----MAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQV 198
           + + A+ +      +  TIVGQE++LD  W  + E     GI+GLYGMGG+GKTTLL Q+
Sbjct: 135 ISDQASTSEVEEQQLQPTIVGQETMLDNAWNHLMED--GVGIMGLYGMGGVGKTTLLTQI 192

Query: 199 NNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK 258
           NNKF      FD VIW VVS+E N+  I ++I +++  S + W  K   ++   + N L+
Sbjct: 193 NNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLR 252

Query: 259 HKKFVLLSDDIWESEIDLTKLGVPLLTL 286
             +FVL  DDIWE +++L ++GVP  T+
Sbjct: 253 KMRFVLFLDDIWE-KVNLVEIGVPFPTI 279

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 =  178 bits (451), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 112/282 (39%), Positives = 163/282 (57%), Gaps = 7/282 (2%)

Query: 1   MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAE 60
           MG   S   S  T+  I   + G++ YI  L+ NL  LQ E E+L A + ++ NKV   E
Sbjct: 1   MGSCFSLQVSDQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDE 59

Query: 61  QQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVE 120
            +   RR   V++W  RV  ++ + + L      E+ +LCL G CSK + SSY +GKKV 
Sbjct: 60  AR-HQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query: 121 KLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGI 180
            L EEV KL  +G    EV +  P           TI GQE +L++ W  + E     GI
Sbjct: 119 LLLEEVKKLNSEGN-FDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMED--GVGI 174

Query: 181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS 240
           +GL+GMGG+GKTTL K+++NKF      FD+VIW VVS+   + ++QEDI +++    D 
Sbjct: 175 MGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDL 234

Query: 241 WQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
           W+ K+  ++A+DI   LK K+FVL+ DDIWE ++DL  +G+P
Sbjct: 235 WKNKNESDKATDIHRVLKGKRFVLMLDDIWE-KVDLEAIGIP 275

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 =  177 bits (450), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 109/282 (38%), Positives = 158/282 (56%), Gaps = 6/282 (2%)

Query: 1   MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAE 60
           MG  +    S D +   +        YI  L+ NL  LQ E E+L A + ++ NKV   E
Sbjct: 1   MGNFVCIEISGDQMLDRIIRCLCGKGYIRNLEKNLRALQREMEDLRATQHEVQNKVA-RE 59

Query: 61  QQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVE 120
           +    +R   V++W  RV  I+ + + L      E+ +LCL G CSK + SSY +GK+V 
Sbjct: 60  ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVF 119

Query: 121 KLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNGI 180
            L EEV KL  +G    EV +  P           TI GQE +L + W  + E     GI
Sbjct: 120 LLLEEVTKLKSEGN-FDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMED--GVGI 175

Query: 181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS 240
           +GL+GMGG+GKTTL K+++NKF      FD+VIW VVS+   L ++QEDI +++    D 
Sbjct: 176 MGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDL 235

Query: 241 WQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
           W+ K+  ++A+DI   LK K+FVL+ DDIWE ++DL  +G+P
Sbjct: 236 WKNKNESDKATDIHRVLKGKRFVLMLDDIWE-KVDLEAIGIP 276

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 =  172 bits (437), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 108/288 (37%), Positives = 159/288 (55%), Gaps = 18/288 (6%)

Query: 1   MGGIISTFFSADTI----RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKV 56
           MG  IS   S D +        F +G    YI  LK N+  L+   E+L A + D+L +V
Sbjct: 1   MGSCISLQISCDQVLTRAYSCFFSLGN---YIHKLKDNIVALEKAIEDLTATRDDVLRRV 57

Query: 57  RLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFG 116
           ++ E +    R   V++W +RVE I  +   L   R+ EI RLC    CS +L SSY +G
Sbjct: 58  QMEEGKGL-ERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYG 116

Query: 117 KKVEKLKEEVIKLWEKGEAMKEVYE--GVPEGAAVAMAVDRTIVGQESILDQVWRCITEQ 174
           ++V  + +EV  L   G      +E    P        +  TI+G+E+I  + W  + + 
Sbjct: 117 QRVFLMIKEVENLNSNG-----FFEIVAAPAPKLEMRPIQPTIMGRETIFQRAWNRLMDD 171

Query: 175 KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI 234
               G +GLYGMGG+GKTTLL Q++N     ++  D+VIW VVS +  + +IQEDIG+++
Sbjct: 172 --GVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKL 229

Query: 235 GFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
           GF    W  K   ++A DI N L  K+FVLL DDIW+ ++DLTK+G+P
Sbjct: 230 GFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWK-KVDLTKIGIP 276

Potential 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 =  172 bits (437), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 104/256 (40%), Positives = 151/256 (58%), Gaps = 6/256 (2%)

Query: 27  YIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVE 86
           YI  L+ NL  LQ E E+L A + ++ NKV   E+    +R   V++W  RV  I+ + +
Sbjct: 28  YIRTLEKNLRALQREMEDLRATQHEVQNKVA-REESRHQQRLEAVQVWLDRVNSIDIECK 86

Query: 87  TLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEG 146
            L      E+ +LCL G C+K + SSY +GKKV  L EEV  L  +G    EV +  P  
Sbjct: 87  DLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGN-FDEVSQPPPRS 145

Query: 147 AAVAMAVDRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE 206
                    TI GQE +L++ W  + E     GI+GL+GMGG+GKTTL K+++NKF    
Sbjct: 146 EVEERPTQPTI-GQEEMLEKAWNRLMED--GVGIMGLHGMGGVGKTTLFKKIHNKFAEIG 202

Query: 207 HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLS 266
             FD+VIW VVS+   L ++QEDI +++    D W+ K+  ++A+DI   LK K+FVL+ 
Sbjct: 203 GTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLML 262

Query: 267 DDIWESEIDLTKLGVP 282
           DDIWE ++DL  +G+P
Sbjct: 263 DDIWE-KVDLEAIGIP 277

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	287
24461866	890	NBS-LRR type disease resistance protein	0.965	0.311	0.470	3e-59
24461861	890	NBS-LRR type disease resistance protein	0.968	0.312	0.438	4e-54
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.968	0.315	0.447	3e-53
24461864	899	NBS-LRR type disease resistance protein	0.982	0.313	0.427	4e-52
24461863	889	NBS-LRR type disease resistance protein	0.951	0.307	0.429	8e-52
22497401	883	RFL1 [Arabidopsis lyrata]	0.968	0.314	0.438	3e-51
15221250	885	disease resistance protein RFL1 [Arabido	0.954	0.309	0.418	7e-50
22497282	885	RFL1 [Arabidopsis thaliana] gi|22497309|	0.954	0.309	0.418	8e-50
297844080	883	hypothetical protein ARALYDRAFT_888542 [	0.968	0.314	0.434	8e-50
22497291	885	RFL1 [Arabidopsis thaliana] gi|22497301|	0.954	0.309	0.418	8e-50

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

 Score =  234 bits (597), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 134/285 (47%), Positives = 182/285 (63%), Gaps = 8/285 (2%)

Query: 1   MGGIISTFFSADTIRP-ILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MG +         I P  L ++  EAKYI  L+ NLDDLQT+ E LI  K D++N+V +A
Sbjct: 1   MGNVFGVQIPWSNIFPRCLDWILNEAKYISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIA 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E+Q  +R    V+ W  RVE ++ + + L +   QEI+RLCL G+CSK+  SSYDFGKKV
Sbjct: 61  ERQQMSRLN-QVQGWVSRVEAVKAEADQLIRVGSQEIERLCLWGYCSKNCKSSYDFGKKV 119

Query: 120 EKLKEEVIKLWEKGEAMKEVY-EGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNN 178
            K  + V  L   GE + EV  E VP  AA     + T++G +S L+QVWRC+ E+    
Sbjct: 120 TKKLQLVETL--MGEGIFEVVAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPA-- 175

Query: 179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST 238
           GI+GLYGMGG+GKTTLL  +NNKF     +F+ VIW VVS++  L  IQE IG++IG   
Sbjct: 176 GIVGLYGMGGVGKTTLLTHINNKFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLN 235

Query: 239 DSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPL 283
           D+W+ +  E++A DI   LK KKFVLL DD+W+  +DL ++GVPL
Sbjct: 236 DTWKNRRIEQKALDIFKILKEKKFVLLLDDLWQ-RVDLVEVGVPL 279

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  217 bits (553), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 125/285 (43%), Positives = 175/285 (61%), Gaps = 7/285 (2%)

Query: 1   MGGIISTFFSAD--TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRL 58
           MG I     S D       L    G+A YI  L+ NL  L TE   LIA K DL+ +V  
Sbjct: 1   MGNICQISISCDGAFFNRCLDCFLGKAAYISNLQDNLVALDTELRKLIAAKNDLMRRVND 60

Query: 59  AEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKK 118
           AE+Q + RR   V++W  RVE +ET+ +    +  QEI++LCLGG+CSK+  SSY FGK+
Sbjct: 61  AERQ-QMRRLDQVQVWVSRVETVETEADAFIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQ 119

Query: 119 VEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNN 178
           V +   ++  L  +G   + V + VPE A      + T+VG +S L++VWRC+ E+    
Sbjct: 120 VARKLRDIKTLMGEG-VFEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPV-- 176

Query: 179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST 238
           GI+GLYGMGG+GKTTLL  +NNKF     +FD+VI  VVS++  L  IQE IG++IG   
Sbjct: 177 GIVGLYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLN 236

Query: 239 DSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPL 283
           D+W+ +  E++A DI   L+ K FV+L DDIW+  +DL K+G+PL
Sbjct: 237 DAWKSRRIEQKALDIFRILRGKNFVVLLDDIWQ-RVDLAKVGIPL 280

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

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 =  214 bits (546), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 127/284 (44%), Positives = 172/284 (60%), Gaps = 6/284 (2%)

Query: 1   MGGIISTFFSADTIRP-ILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MG   S   S D +    L +   +A YI  LK N+D L+   E L     D+  +V++ 
Sbjct: 1   MGNFCSISISCDKLLSGCLDFTFRKAVYISKLKENVDGLKIAVEELTDLHNDVTRRVKVD 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E+Q + ++   V+ W  R +    K   L +E  QEI+RLCL G+CSK+  SSY F K+V
Sbjct: 61  EEQ-QLKQLDQVQRWISRAKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEV 119

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNG 179
           +K   +V  L   G+  K V E VP  + V    + T VG ES  +QVW C+ E+K+  G
Sbjct: 120 DKRLRDVADLKANGD-FKVVAEKVPAASGVPRPSEPT-VGLESTFNQVWTCLREEKQV-G 176

Query: 180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
           I+GLYGMGG+GKTTLL Q+NN+      DFD+VIW VVS++  L  +QE IG+ IG S D
Sbjct: 177 IVGLYGMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDD 236

Query: 240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPL 283
            W+ KS +E+A DI N L+HK+FV+L DDIWE  +DL KLGVPL
Sbjct: 237 LWKNKSLDEKAVDIFNALRHKRFVMLLDDIWE-RVDLKKLGVPL 279

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  210 bits (535), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 124/290 (42%), Positives = 174/290 (60%), Gaps = 8/290 (2%)

Query: 1   MGGIISTFFSAD--TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRL 58
           MG I+    S D       L    G+A Y+  L+ N++ L+ E   LIAKK D++ +V  
Sbjct: 1   MGNILQISISCDGTCFNRCLDCFLGKAAYVRNLQKNVEALKNELPKLIAKKDDVMARVVN 60

Query: 59  AEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKK 118
           AE+Q    R   V+LW  RV+ +    + L +   QEI++LCLGG+CSK+  SS  FGK+
Sbjct: 61  AERQQMMTRLNEVQLWLSRVDAVTAGADELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQ 120

Query: 119 VEKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNN 178
           V+K   +V  L  +G +   V +  PE  A    ++   VG +S L+QVWRC+ E+    
Sbjct: 121 VDKKLSDVKILLAEG-SFAVVAQRAPESVADERPIEPA-VGIQSQLEQVWRCLVEEPV-- 176

Query: 179 GIIGLYGMGGIGKTTLLKQVNNKFCSE-EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS 237
           GI+GLYGMGG+GKTTLL  +NNKF  + +  FD +IW VVS++  + +IQE IGK++G  
Sbjct: 177 GIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLF 236

Query: 238 TDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD 287
            DSW  K+  ERA DI N LK KKFVLL DD+W+  +D   +GVP+   D
Sbjct: 237 NDSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQ-RVDFATVGVPIPPRD 285

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  209 bits (533), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 124/289 (42%), Positives = 171/289 (59%), Gaps = 16/289 (5%)

Query: 1   MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAE 60
           MG I+            +    G+A YI  L+ N+  L+TE   LI  K D++ +V   E
Sbjct: 1   MGNILQIAIDGAVFNRCMDCFLGKAAYIRNLQENVVALETELGKLIEAKNDVMARVVNTE 60

Query: 61  QQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVE 120
           +QP   R   V+ W   V+ ++ + + L +   QEI++LCLGG+CSK+  SSY FGK+V 
Sbjct: 61  RQPMMTRLNKVQGWLSGVDAVKAEADELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQVA 120

Query: 121 KLKEEVIKLWEKGEAMKE-VYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNG 179
           K      KL + G  M E V+E V E A  + AV     G +S L+ VWRC+ E+    G
Sbjct: 121 K------KLRDAGTLMAEGVFEVVAERAPESAAV-----GMQSRLEPVWRCLVEEPV--G 167

Query: 180 IIGLYGMGGIGKTTLLKQVNNKFCSE-EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST 238
           I+GLYGMGG+GKTTLL  +NNKF  + +  FD +IW VVS++  + +IQE IGK++GF  
Sbjct: 168 IVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGFFN 227

Query: 239 DSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD 287
           DSW  K+  ERA DI N LK KKFVLL DD+W+  +D   +GVP+   D
Sbjct: 228 DSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQ-RVDFATVGVPIPPRD 275

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497401|gb|AAL65637.1| RFL1 [Arabidopsis lyrata]

 Score =  208 bits (529), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 124/283 (43%), Positives = 161/283 (56%), Gaps = 5/283 (1%)

Query: 1   MGGIISTFFSAD-TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG IS   S D  +  I   +     YI  L  NL  LQ     L AK+ D+  +V   
Sbjct: 1   MGGCISVSLSCDRVVNQISQCLCVSGNYIHNLSENLASLQKAMGVLKAKRDDVQGRVDRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R+  IE +   L    + EI RLCL GFCSK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRILTIENQFNDLLSTCNAEIQRLCLCGFCSKNMKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNG 179
             L  EV  L  +GE    V E  P      + +  TIVGQ+S+LD+VW C+ E K   G
Sbjct: 121 IVLLREVEGLSSQGE-FDVVTEATPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKV--G 177

Query: 180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
           I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ  IG+++G    
Sbjct: 178 IVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQRSIGEKLGLVGK 237

Query: 240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
            W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 238 KWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVNLNVIGVP 279

Source: Arabidopsis lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221250|ref|NP_172685.1| disease resistance protein RFL1 [Arabidopsis thaliana] gi|46396936|sp|Q8L3R3.2|RFL1_ARATH RecName: Full=Disease resistance protein RFL1; AltName: Full=RPS5-like protein 1; AltName: Full=pNd13/pNd14 gi|10086513|gb|AAG12573.1|AC022522_6 NBS/LRR disease resistance protein [Arabidopsis thaliana] gi|3309619|gb|AAC26125.1| NBS/LRR disease resistance protein [Arabidopsis thaliana] gi|332190728|gb|AEE28849.1| disease resistance protein RFL1 [Arabidopsis thaliana]

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 120/287 (41%), Positives = 168/287 (58%), Gaps = 13/287 (4%)

Query: 1   MGGIISTFFSADT-IRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG +S   S D  +     ++     YI  L  NL  LQ     L AK+ D+  ++   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R++ IE +   L    + EI RLCL GFCSK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVA----MAVDRTIVGQESILDQVWRCITEQK 175
             L  EV     +G + + V++ V E A +A    + +  TIVGQ+S+LD+VW C+ E K
Sbjct: 121 IVLLREV-----EGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDK 175

Query: 176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG 235
               I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ+ IG+++G
Sbjct: 176 V--WIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLG 233

Query: 236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
               +W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 234 LVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVELKVIGVP 279

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497282|gb|AAL65604.1| RFL1 [Arabidopsis thaliana] gi|22497309|gb|AAL65621.1| RFL1 [Arabidopsis thaliana]

 Score =  203 bits (516), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 120/287 (41%), Positives = 168/287 (58%), Gaps = 13/287 (4%)

Query: 1   MGGIISTFFSADT-IRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG +S   S D  +     ++     YI  L  NL  LQ     L AK+ D+  ++   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLKAKRDDVQGRINRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R++ IE +   L    + EI RLCL GFCSK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVA----MAVDRTIVGQESILDQVWRCITEQK 175
             L  EV     +G + + V++ V E A +A    + +  TIVGQ+S+LD+VW C+ E K
Sbjct: 121 IVLLREV-----EGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDK 175

Query: 176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG 235
               I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ+ IG+++G
Sbjct: 176 V--WIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLG 233

Query: 236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
               +W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 234 LVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVELKVIGVP 279

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844080|ref|XP_002889921.1| hypothetical protein ARALYDRAFT_888542 [Arabidopsis lyrata subsp. lyrata] gi|297335763|gb|EFH66180.1| hypothetical protein ARALYDRAFT_888542 [Arabidopsis lyrata subsp. lyrata]

 Score =  203 bits (516), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 123/283 (43%), Positives = 160/283 (56%), Gaps = 5/283 (1%)

Query: 1   MGGIISTFFSAD-TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG IS   S D  +  I   +     YI  L  NL  LQ     L AK+ D+  +V   
Sbjct: 1   MGGCISVSLSCDRVVNQISQCLCVSGNYIHNLSENLASLQKAMGVLKAKRDDVQGRVDRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R+  IE +   L    + EI RLCL GF SK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRILTIENQFNDLLSTCNAEIQRLCLCGFFSKNMKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNG 179
             L  EV  L  +GE    V E  P      + +  TIVGQ+S+LD+VW C+ E K   G
Sbjct: 121 IVLLREVEGLSSQGE-FDVVTEATPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKV--G 177

Query: 180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
           I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ  IG+++G    
Sbjct: 178 IVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQRSIGEKLGLVGK 237

Query: 240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
            W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 238 KWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVNLNVIGVP 279

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497291|gb|AAL65610.1| RFL1 [Arabidopsis thaliana] gi|22497301|gb|AAL65616.1| RFL1 [Arabidopsis thaliana]

 Score =  203 bits (516), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 120/287 (41%), Positives = 168/287 (58%), Gaps = 13/287 (4%)

Query: 1   MGGIISTFFSADT-IRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
           MGG +S   S D  +     ++     YI  L  NL  LQ     L AK+ D+  ++   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLKAKRDDVQGRINRE 60

Query: 60  EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKV 119
           E     RR   V++W  R++ IE +   L    + EI RLCL GFCSK++  SY +GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 120 EKLKEEVIKLWEKGEAMKEVYEGVPEGAAVA----MAVDRTIVGQESILDQVWRCITEQK 175
             L  EV     +G + + V++ V E A +A    + +  TIVGQ+S+LD+VW C+ E K
Sbjct: 121 IVLLREV-----EGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDK 175

Query: 176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG 235
               I+GLYGMGG+GKTTLL Q+NNKF      FDVVIW VVS+   + +IQ+ IG+++G
Sbjct: 176 V--WIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLG 233

Query: 236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
               +W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct: 234 LVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVELKVIGVP 279

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	287
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.968	0.314	0.367	8.6e-40
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.961	0.310	0.353	1.7e-38
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.940	0.305	0.351	2.4e-36
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.968	0.310	0.353	5.2e-36
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.979	0.316	0.344	1.3e-34
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.878	0.282	0.342	2.6e-33
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.878	0.280	0.343	5.4e-33
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.958	0.284	0.332	8.1e-33
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.958	0.305	0.333	8.9e-33
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.968	0.318	0.309	1.8e-32

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

 Score = 433 (157.5 bits), Expect = 8.6e-40, P = 8.6e-40
 Identities = 104/283 (36%), Positives = 143/283 (50%)

Query:     1 MGGIISTFFSADT-IRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
             MGG +S   S D  +     ++     YI  L  NL  LQ     L AK+ D+  ++   
Sbjct:     1 MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query:    60 EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXX 119
             E     RR   V++W  R++ IE +   L    + EI RLCL GFCSK++  SY +G   
Sbjct:    61 EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query:   120 XXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNX 179
                          G     V E  P      + +  TIVGQ+S+LD+VW C+ E K    
Sbjct:   121 IVLLREVEGLSSQG-VFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKV--W 177

Query:   180 XXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
                        KTTLL Q+NNKF      FDVVIW VVS+   + +IQ+ IG+++G    
Sbjct:   178 IVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGK 237

Query:   240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
             +W  K+  +RA DI N L+ KKFVLL DDIWE +++L  +GVP
Sbjct:   238 NWDEKNKNQRALDIHNVLRRKKFVLLLDDIWE-KVELKVIGVP 279

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 = 421 (153.3 bits), Expect = 1.7e-38, P = 1.7e-38
 Identities = 100/283 (35%), Positives = 154/283 (54%)

Query:     1 MGGIISTFFSADTI-RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
             MGG +S   S D + + +   +     YI GL+ NL  LQ   E +  ++ DLL K+ L+
Sbjct:     1 MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKI-LS 59

Query:    60 EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXX 119
             E++   +R   V+ W  +VE I  +V  L + R  ++ RLCL GFCSK+L+SSY +G   
Sbjct:    60 EERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRV 119

Query:   120 XXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNX 179
                          G+    V E V + A V     R +V  + +L+  W  + E +    
Sbjct:   120 MKMIEEVEVLRYQGD-FAVVAERV-DAARVEERPTRPMVAMDPMLESAWNRLMEDEIG-- 175

Query:   180 XXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
                        KTTLL  +NN+F     +FD+VIW VVS+E  + +IQ++I +++    +
Sbjct:   176 ILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNE 235

Query:   240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
              W+ K+ + +AS+I N LKHK+FVLL DDIW S++DLT++GVP
Sbjct:   236 KWKQKTEDIKASNIYNVLKHKRFVLLLDDIW-SKVDLTEVGVP 277

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 401 (146.2 bits), Expect = 2.4e-36, P = 2.4e-36
 Identities = 102/290 (35%), Positives = 155/290 (53%)

Query:     1 MGGIISTFFSADTIRPILFYVGG----EAKYIWGLKGNLDDLQTETENLIAKKLDLLNKV 56
             MGG +S   S D +   L ++G     +  YI  +K NL  L+   E+L A + DLL KV
Sbjct:     1 MGGCVSVQVSCDQL---LNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKV 57

Query:    57 RLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFG 116
             + AE+    +R   +++W +RV+ IE++   L   R  E+ RLC  G  S++L  SYD+G
Sbjct:    58 QTAEEGGL-QRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYG 116

Query:   117 XXXXXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDR----TIVGQESILDQVWRCIT 172
                             G     ++E V   A  A+  +R    TIVGQE+IL++ W  + 
Sbjct:   117 RRVFLMLNIVEDLKSKG-----IFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLM 171

Query:   173 EQKKNNXXXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK 232
             +                 KTTLL Q+NN+FC  +   ++VIW VVS +  + +IQ++IG+
Sbjct:   172 DD--GTKIMGLYGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGE 229

Query:   233 RIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
             +IGF    W  KS  ++A DI N L  K+FVLL DDIW+  ++LT++G+P
Sbjct:   230 KIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIWK-RVELTEIGIP 278

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

 Score = 398 (145.2 bits), Expect = 5.2e-36, P = 5.2e-36
 Identities = 100/283 (35%), Positives = 141/283 (49%)

Query:     1 MGGIISTFFSAD-TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
             MG  ++  FS D  +  I   +     YI  L  N+  ++ + E L  K+ D+  +V + 
Sbjct:     1 MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query:    60 EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXX 119
             E   R  R   V+ W   V  +E K   L    D E+ RLCL GFCSK++  SY +G   
Sbjct:    61 EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query:   120 XXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNX 179
                          G+    V    P      M +  TIVGQE++L++VW  +TE    + 
Sbjct:   121 VLMLKEIESLSSQGD-FDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTED--GDE 177

Query:   180 XXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
                        KTTLL ++NNKF  +   F VVIW VVS+ P++ +IQ DIGKR+    +
Sbjct:   178 IVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGE 237

Query:   240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
              W   +  +RA DI N L  +KFVLL DDIWE +++L  LGVP
Sbjct:   238 EWDNVNENQRALDIYNVLGKQKFVLLLDDIWE-KVNLEVLGVP 279

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 385 (140.6 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 100/290 (34%), Positives = 139/290 (47%)

Query:     1 MGGIISTFFSADTIRPI---LFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVR 57
             MGG  S     D +      L  V G   YI  L  NL  LQ     L A++ D++ ++ 
Sbjct:     1 MGGCFSVSLPCDQVVSQFSQLLCVRGS--YIHNLSKNLASLQKAMRMLKARQYDVIRRLE 58

Query:    58 LAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGX 117
               E   R +R   V++W   V  I+ +   L +  + E+ RLCL GFCSKDL  SY +G 
Sbjct:    59 TEEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGK 118

Query:   118 XXXXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKN 177
                            G     V E  P      +    TIVGQE +L++ W  + E    
Sbjct:   119 RVIMMLKEVESLSSQG-FFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMED--G 175

Query:   178 NXXXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS 237
             +            KTTLL ++NNKF   +  FDVVIW VVSR   + +IQ DI +++G  
Sbjct:   176 SGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLG 235

Query:   238 TDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTLD 287
                W  K+  + A DI N L+ +KFVLL DDIWE +++L  +GVP  + D
Sbjct:   236 GMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWE-KVNLKAVGVPYPSKD 284

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:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.6e-33, P = 2.6e-33
 Identities = 89/260 (34%), Positives = 135/260 (51%)

Query:    24 EAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRN-RRTPTVELWFRRVEEIE 82
             +  Y   L+ NL  L+T  E L AK+ DLL   RL  ++ R  +R    ++W  RV  +E
Sbjct:    23 KGSYTHNLEKNLVALETTMEELKAKRDDLLR--RLKREEDRGLQRLSEFQVWLNRVATVE 80

Query:    83 TKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXXXXXXXXXXXXXXXGEAMKEVYEG 142
               + TL ++RD EI RLCL  FCSK+L +SY +G                GE    + E 
Sbjct:    81 DIIITLLRDRDVEIQRLCLCRFCSKNLTTSYRYGKSVFLRLREVEKLK--GEVFGVITEQ 138

Query:   143 VPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNXXXXXXXXXXXXKTTLLKQVNNKF 202
                 A     +  TIVGQ+ +LD+ W+ + E                 KTTLL Q+ N F
Sbjct:   139 ASTSAFEERPLQPTIVGQKKMLDKAWKHLMED--GTGIMGMYGMGGVGKTTLLTQLFNMF 196

Query:   203 CSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKF 262
               ++  FD+ IW VVS+E N+ +IQ++I +++G     W  +   ++   + N LK+KKF
Sbjct:   197 NKDKCGFDIGIWVVVSQEVNVEKIQDEIAQKLGLGGHEWTQRDISQKGVHLFNFLKNKKF 256

Query:   263 VLLSDDIWESEIDLTKLGVP 282
             VL  DD+W+ +++L  +GVP
Sbjct:   257 VLFLDDLWD-KVELANIGVP 275

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 370 (135.3 bits), Expect = 5.4e-33, P = 5.4e-33
 Identities = 92/268 (34%), Positives = 142/268 (52%)

Query:    24 EAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRT-PTVELWFRRVEEIE 82
             +  Y   L+ NL  L+T  E L AK+ DLL K++   ++ R  +T   +++W  RVE IE
Sbjct:    23 KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLK--REEDRGLQTLGEIKVWLNRVETIE 80

Query:    83 TKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXXXXXXXXXXXXXXXGEAMKEVYEG 142
             ++V  L   R+ E+ RLCL GFCSK L +SY +G                 +  + V+E 
Sbjct:    81 SRVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVE------KLERRVFEV 134

Query:   143 VPEGAAVAMAVDR----TIVGQESILDQVWRCITEQKKNNXXXXXXXXXXXXKTTLLKQV 198
             + + A+ +   ++    TIVGQE++LD  W  + E                 KTTLL Q+
Sbjct:   135 ISDQASTSEVEEQQLQPTIVGQETMLDNAWNHLMEDGVG--IMGLYGMGGVGKTTLLTQI 192

Query:   199 NNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK 258
             NNKF      FD VIW VVS+E N+  I ++I +++  S + W  K   ++   + N L+
Sbjct:   193 NNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLR 252

Query:   259 HKKFVLLSDDIWESEIDLTKLGVPLLTL 286
               +FVL  DDIWE +++L ++GVP  T+
Sbjct:   253 KMRFVLFLDDIWE-KVNLVEIGVPFPTI 279

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 369 (135.0 bits), Expect = 8.1e-33, P = 8.1e-33
 Identities = 94/283 (33%), Positives = 140/283 (49%)

Query:     1 MGGIISTFFSADTIRP-ILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
             MG  +    S D +   I+  + G+  YI  L+ NL  LQ E E+L A + ++ NKV   
Sbjct:     1 MGNFVCIEISGDQMLDRIIRCLCGKG-YIRNLEKNLRALQREMEDLRATQHEVQNKVA-R 58

Query:    60 EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXX 119
             E+    +R   V++W  RV  I+ + + L      E+ +LCL G CSK + SSY +G   
Sbjct:    59 EESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRV 118

Query:   120 XXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNX 179
                          G    EV +  P           TI GQE +L + W  + E      
Sbjct:   119 FLLLEEVTKLKSEGN-FDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVG-- 174

Query:   180 XXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
                        KTTL K+++NKF      FD+VIW VVS+   L ++QEDI +++    D
Sbjct:   175 IMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDD 234

Query:   240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
              W+ K+  ++A+DI   LK K+FVL+ DDIWE ++DL  +G+P
Sbjct:   235 LWKNKNESDKATDIHRVLKGKRFVLMLDDIWE-KVDLEAIGIP 276

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 368 (134.6 bits), Expect = 8.9e-33, P = 8.9e-33
 Identities = 94/282 (33%), Positives = 141/282 (50%)

Query:     1 MGGIISTFFSADTIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAE 60
             MG   S   S  T+  I   + G++ YI  L+ NL  LQ E E+L A + ++ NKV   E
Sbjct:     1 MGSCFSLQVSDQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDE 59

Query:    61 QQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXXX 120
              +   RR   V++W  RV  ++ + + L      E+ +LCL G CSK + SSY +G    
Sbjct:    60 AR-HQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query:   121 XXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNXX 180
                         G    EV +  P           TI GQE +L++ W  + E       
Sbjct:   119 LLLEEVKKLNSEGN-FDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVG--I 174

Query:   181 XXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS 240
                       KTTL K+++NKF      FD+VIW VVS+   + ++QEDI +++    D 
Sbjct:   175 MGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDL 234

Query:   241 WQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP 282
             W+ K+  ++A+DI   LK K+FVL+ DDIWE ++DL  +G+P
Sbjct:   235 WKNKNESDKATDIHRVLKGKRFVLMLDDIWE-KVDLEAIGIP 275

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 365 (133.5 bits), Expect = 1.8e-32, P = 1.8e-32
 Identities = 88/284 (30%), Positives = 137/284 (48%)

Query:     1 MGGIISTFFSAD-TIRPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLA 59
             MG   S   S D  +  +   +         L  ++  L+     L A++ DLL ++++ 
Sbjct:     1 MGACFSVAISCDQAVNNLTSCLSRNQNRFRNLVDHVAALKKTVRQLEARRDDLLKRIKVQ 60

Query:    60 EQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGXXX 119
             E +  N     V+ W   VE    +   +  + D+EID LC G +CSK    SYD+    
Sbjct:    61 EDRGLNL-LDEVQQWLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSV 119

Query:   120 XXXXXXXXXXXXXGEAMKEVYEGVPEGAAVAMAVDRTIVGQESILDQVWRCITEQKKNNX 179
                          G    EV +  P          + IVGQE+I++  W  + E      
Sbjct:   120 INKLQDVENLLSKG-VFDEVAQKGPIPKVEERLFHQEIVGQEAIVESTWNSMMEVGVG-- 176

Query:   180 XXXXXXXXXXXKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD 239
                        KTTLL Q+NNKF +  +DFD+ IW VVS+ P + +IQEDIGKR+    +
Sbjct:   177 LLGIYGMGGVGKTTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNE 236

Query:   240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPL 283
              W+ K+  E AS I  +L++KK++LL DD+W +++DL  +G+P+
Sbjct:   237 GWEQKTENEIASTIKRSLENKKYMLLLDDMW-TKVDLANIGIPV 279

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

---

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: fgenesh4_pm.C_LG_I001004 cc-nbs-lrr resistance protein (880 aa) (Populus trichocarpa)

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	287
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	6e-29

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

 Score =  111 bits (279), Expect = 6e-29
 Identities = 47/124 (37%), Positives = 71/124 (57%), Gaps = 2/124 (1%)

Query: 160 QESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR 219
           +E +++ +   + E   N G++G+ GMGG+GKTTL KQ+ N   S    FD V W VVS+
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSK 59

Query: 220 EPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKL 279
                ++Q+DI + +G     W  K+  E A  I   L  K+F+L+ DD+WE + D  K+
Sbjct: 60  TYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWE-KNDWDKI 118

Query: 280 GVPL 283
           GVP 
Sbjct: 119 GVPF 122

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	287
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.89
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.62
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.19
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.07
cd01128	249	rho_factor Transcription termination factor rho is	98.99
PRK09376	416	rho transcription termination factor Rho; Provisio	98.89
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.84
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.84
TIGR00767	415	rho transcription termination factor Rho. Members	98.79
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.78
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.69
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.64
PTZ00202	550	tuzin; Provisional	98.6
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.55
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.52
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.4
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.4
PF05729	166	NACHT: NACHT domain	98.39
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.36
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.35
KOG2028	554	consensus ATPase related to the helicase subunit o	98.35
PRK13342	413	recombination factor protein RarA; Reviewed	98.34
PRK08118	167	topology modulation protein; Reviewed	98.18
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.1
PF13173	128	AAA_14: AAA domain	98.06
PRK04841	903	transcriptional regulator MalT; Provisional	98.0
PRK13341	725	recombination factor protein RarA/unknown domain f	97.99
smart00382	148	AAA ATPases associated with a variety of cellular	97.98
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.94
PRK07261	171	topology modulation protein; Provisional	97.92
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.91
PRK04195	482	replication factor C large subunit; Provisional	97.9
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.89
CHL00095	821	clpC Clp protease ATP binding subunit	97.85
PRK12608	380	transcription termination factor Rho; Provisional	97.85
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.84
PRK06893	229	DNA replication initiation factor; Validated	97.84
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.84
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.83
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.8
PF00004	132	AAA: ATPase family associated with various cellula	97.8
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.74
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.73
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.72
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.68
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.66
PRK08116	268	hypothetical protein; Validated	97.66
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.66
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.64
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.61
PRK08727	233	hypothetical protein; Validated	97.61
PLN03025	319	replication factor C subunit; Provisional	97.61
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.6
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.6
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.6
PRK10865	857	protein disaggregation chaperone; Provisional	97.59
PRK12377	248	putative replication protein; Provisional	97.57
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.57
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.56
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.56
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.54
PHA02544	316	44 clamp loader, small subunit; Provisional	97.53
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.53
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.52
PRK07952	244	DNA replication protein DnaC; Validated	97.51
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.49
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.48
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.47
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.47
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.47
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.45
CHL00181	287	cbbX CbbX; Provisional	97.44
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.44
PRK05541	176	adenylylsulfate kinase; Provisional	97.44
PRK06835	329	DNA replication protein DnaC; Validated	97.43
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.41
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.41
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.38
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.37
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.37
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.36
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.36
PRK06696	223	uridine kinase; Validated	97.36
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.36
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.35
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.34
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.33
PRK08084	235	DNA replication initiation factor; Provisional	97.31
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.31
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.29
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.29
PRK07667	193	uridine kinase; Provisional	97.29
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.29
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.27
PRK15455	644	PrkA family serine protein kinase; Provisional	97.27
PRK08233	182	hypothetical protein; Provisional	97.26
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.26
CHL00176	638	ftsH cell division protein; Validated	97.25
PRK12402	337	replication factor C small subunit 2; Reviewed	97.25
TIGR00959	428	ffh signal recognition particle protein. This mode	97.24
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.23
PRK03839	180	putative kinase; Provisional	97.22
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.21
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.21
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.2
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.2
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.19
PRK08939	306	primosomal protein DnaI; Reviewed	97.18
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.17
PRK10867	433	signal recognition particle protein; Provisional	97.13
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.12
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.12
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.1
PRK04296	190	thymidine kinase; Provisional	97.1
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.09
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.09
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.08
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.08
PRK05480	209	uridine/cytidine kinase; Provisional	97.08
PRK06762	166	hypothetical protein; Provisional	97.07
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.06
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.06
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.06
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.05
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.05
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.04
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.04
PRK06547	172	hypothetical protein; Provisional	97.04
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.02
PRK09354	349	recA recombinase A; Provisional	97.02
PRK08181	269	transposase; Validated	97.01
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.0
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.98
PRK06067	234	flagellar accessory protein FlaH; Validated	96.98
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.98
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.98
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.97
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.96
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.96
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.96
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.96
PTZ00301	210	uridine kinase; Provisional	96.95
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.95
PRK06526	254	transposase; Provisional	96.94
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.94
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.93
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.93
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.93
PHA00729	226	NTP-binding motif containing protein	96.92
PRK09183	259	transposase/IS protein; Provisional	96.92
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.91
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.9
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.9
PRK06921	266	hypothetical protein; Provisional	96.9
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.89
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.89
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.89
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.89
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.89
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.89
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.88
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.86
PRK12422	445	chromosomal replication initiation protein; Provis	96.85
PRK13531	498	regulatory ATPase RavA; Provisional	96.85
PRK10865	857	protein disaggregation chaperone; Provisional	96.85
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.84
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.84
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.82
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.82
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.81
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.79
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.78
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.76
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.75
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.75
PRK05439	311	pantothenate kinase; Provisional	96.75
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.74
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.74
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.73
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.73
PRK07940	394	DNA polymerase III subunit delta'; Validated	96.73
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.72
PRK04040	188	adenylate kinase; Provisional	96.71
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.71
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.71
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.7
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.69
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.69
PTZ00035	337	Rad51 protein; Provisional	96.69
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.69
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.69
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.68
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.67
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.67
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.67
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.67
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.66
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.66
CHL00095	821	clpC Clp protease ATP binding subunit	96.66
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.66
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.66
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.65
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.64
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.63
PRK07594	433	type III secretion system ATPase SsaN; Validated	96.62
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.62
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.61
PRK09087	226	hypothetical protein; Validated	96.61
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.6
PRK12678	672	transcription termination factor Rho; Provisional	96.6
PRK08149	428	ATP synthase SpaL; Validated	96.59
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.59
PRK14974	336	cell division protein FtsY; Provisional	96.59
PTZ00088	229	adenylate kinase 1; Provisional	96.58
PRK00625	173	shikimate kinase; Provisional	96.57
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.57
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.56
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.55
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.54
PRK04328	249	hypothetical protein; Provisional	96.53
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.53
PTZ00185	574	ATPase alpha subunit; Provisional	96.52
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.5
PRK00889	175	adenylylsulfate kinase; Provisional	96.5
CHL00195	489	ycf46 Ycf46; Provisional	96.49
PRK00131	175	aroK shikimate kinase; Reviewed	96.49
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.49
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.49
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.49
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.47
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.47
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.46
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.44
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.44
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.44
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.43
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.43
) 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	96.42
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.41
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.4
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.4
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.4
PRK13765	637	ATP-dependent protease Lon; Provisional	96.39
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.37
PRK00300	205	gmk guanylate kinase; Provisional	96.36
PRK06217	183	hypothetical protein; Validated	96.36
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.35
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.35
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.35
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.35
PRK14738	206	gmk guanylate kinase; Provisional	96.35
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.35
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.35
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.34
PRK03846	198	adenylylsulfate kinase; Provisional	96.33
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.33
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.32
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.32
PRK06936	439	type III secretion system ATPase; Provisional	96.32
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.31
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.31
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.31
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.29
PRK13949	169	shikimate kinase; Provisional	96.29
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.29
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.28
PRK04182	180	cytidylate kinase; Provisional	96.26
PRK10536	262	hypothetical protein; Provisional	96.26
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.26
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.26
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.25
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.25
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	96.24
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.24
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.24
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.24
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.23
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.23
PRK13947	171	shikimate kinase; Provisional	96.22
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.22
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.22
PRK14530	215	adenylate kinase; Provisional	96.21
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.2
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.19
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.19
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.19
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.18
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.18
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.18
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.18
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.17
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.17
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.17
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.17
PRK13975	196	thymidylate kinase; Provisional	96.16
PRK05642	234	DNA replication initiation factor; Validated	96.16
PRK15453	290	phosphoribulokinase; Provisional	96.15
PRK06620	214	hypothetical protein; Validated	96.15
PF14516	331	AAA_35: AAA-like domain	96.14
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.14
PRK13695	174	putative NTPase; Provisional	96.14
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.14
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.14
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.13
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	96.13
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	96.13
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.12
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.12
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.12
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.12
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.12
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.12
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.12
PRK00279	215	adk adenylate kinase; Reviewed	96.12
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.11
PLN02318	656	phosphoribulokinase/uridine kinase	96.11
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.08
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.08
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.08
PRK14527	191	adenylate kinase; Provisional	96.08
PRK05922	434	type III secretion system ATPase; Validated	96.07
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.06
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.06
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.05
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.05
PRK11823	446	DNA repair protein RadA; Provisional	96.05
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.05
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.04
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.04
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.03
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.03
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.03
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.02
PRK05057	172	aroK shikimate kinase I; Reviewed	96.02
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.01
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	96.01
COG0714	329	MoxR-like ATPases [General function prediction onl	96.0
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.98
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.98
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.98
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.98
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.97
KOG0927	614	consensus Predicted transporter (ABC superfamily)	95.96
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.95
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.94
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.92
PRK10416	318	signal recognition particle-docking protein FtsY;	95.92
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.92
PLN02200	234	adenylate kinase family protein	95.91
PF07726	131	AAA_3: ATPase family associated with various cellu	95.91
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.9
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.88
PRK13948	182	shikimate kinase; Provisional	95.88
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.87
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.87
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	95.83
PRK09825	176	idnK D-gluconate kinase; Provisional	95.83
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.82
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.82
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	95.82
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.82
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.81
PRK13946	184	shikimate kinase; Provisional	95.8
PRK06820	440	type III secretion system ATPase; Validated	95.8
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.79
COG1100	219	GTPase SAR1 and related small G proteins [General	95.78
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.78
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.78
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.76
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	95.75
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.75
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.74
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.74
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	95.72
cd02117	212	NifH_like This family contains the NifH (iron prot	95.7
PLN02796	347	D-glycerate 3-kinase	95.69
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.69
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.68
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	95.68
cd03116	159	MobB Molybdenum is an essential trace element in t	95.68
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.67
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.67
PRK14737	186	gmk guanylate kinase; Provisional	95.66
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.66
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.66
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.65
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.65
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.65
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.63
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.62
PRK08356	195	hypothetical protein; Provisional	95.61
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.61
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.61
PRK13230	279	nitrogenase reductase-like protein; Reviewed	95.61
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.61
PRK09099	441	type III secretion system ATPase; Provisional	95.61
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.6
PRK14532	188	adenylate kinase; Provisional	95.6
PRK03731	171	aroL shikimate kinase II; Reviewed	95.59
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.59
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.59
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.58
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.58
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.57
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.57
PLN02348	395	phosphoribulokinase	95.57
PRK06761	282	hypothetical protein; Provisional	95.57
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.57
PF13245	76	AAA_19: Part of AAA domain	95.56
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.54
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.54
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	95.53
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	95.53
PRK01184	184	hypothetical protein; Provisional	95.52
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.52
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.52
PRK13236	296	nitrogenase reductase; Reviewed	95.52
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	95.51
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	95.51
PRK09302	509	circadian clock protein KaiC; Reviewed	95.51
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.5
KOG1514	767	consensus Origin recognition complex, subunit 1, a	95.5
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.49
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.49
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.48
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.46
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.46
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.46
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.46
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.45
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.45
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.45
PLN02674	244	adenylate kinase	95.45
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.44
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.44
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.44
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.44
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.43
PRK00698	205	tmk thymidylate kinase; Validated	95.42
PLN02165	334	adenylate isopentenyltransferase	95.42
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.42
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.41
PRK14529	223	adenylate kinase; Provisional	95.4
PRK04196	460	V-type ATP synthase subunit B; Provisional	95.4
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.39
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.39
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.39
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.38
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.38
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.37
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	95.37
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.37
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.37
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.36
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.35
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.35
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.35
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.35
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.34
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.34
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.33
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.33
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.33
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	95.33
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.33
PLN02924	220	thymidylate kinase	95.33
PRK14531	183	adenylate kinase; Provisional	95.32
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.32
cd03114	148	ArgK-like The function of this protein family is u	95.32
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.32
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.31
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	95.31
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.31
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.31
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.31
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.31
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.3
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.3
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.3
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.3
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.29
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	95.29
PRK13768	253	GTPase; Provisional	95.29
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.29
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.28
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.28
PHA02530	300	pseT polynucleotide kinase; Provisional	95.27
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.26
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.26
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	95.26
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.26
PRK02496	184	adk adenylate kinase; Provisional	95.26
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.26
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.25
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.25
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.24
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	95.24
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.24

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.3e-38  Score=304.98  Aligned_cols=259  Identities=35%  Similarity=0.553  Sum_probs=220.0

Q ss_pred             chhhhhhhhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHHHHhhHH
Q 043249           15 RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQERDQ   94 (287)
Q Consensus        15 ~~l~~~l~~~~~~~~~~~~~~~~L~~~L~~l~~~l~d~~~~~~~ae~~~~~~~~~~~~~Wl~~lr~~a~d~eD~ld~~~~   94 (287)
                      +++.+++.+++..+.+.++++..|++.|..|+.+++|       ++.++  .....+..|...+++++|++||.++.+..
T Consensus        10 ~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d-------~~a~~--~~~~~~~~~~e~~~~~~~~~e~~~~~~~v   80 (889)
T KOG4658|consen   10 EKLDQLLNRESECLDGKDNYILELKENLKALQSALED-------LDAKR--DDLERRVNWEEDVGDLVYLAEDIIWLFLV   80 (889)
T ss_pred             hhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHhhc--chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778899999999999999999999999999999999       66655  56678899999999999999999998766


Q ss_pred             Hhh----------------hhhccCccCccchhHhHHHHHHHHHHHHHHHHHHhCcccccccc-ccccccccccCCCCcc
Q 043249           95 EID----------------RLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYE-GVPEGAAVAMAVDRTI  157 (287)
Q Consensus        95 ~~~----------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  157 (287)
                      +..                +.|+.++|.+++...+.+++++-++.+.++.+...+. |..+.. ..+......+|..+..
T Consensus        81 ~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~-~~~~~~~~~~~~~~e~~~~~~~~  159 (889)
T KOG4658|consen   81 EEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGV-FEVVGESLDPREKVETRPIQSES  159 (889)
T ss_pred             HHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccc-eecccccccchhhcccCCCCccc
Confidence            542                2345567777888888889999999999988887665 655554 2222333444433333


Q ss_pred             -cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCC
Q 043249          158 -VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGF  236 (287)
Q Consensus       158 -vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~  236 (287)
                       ||.+..++++++.|.++  +..+++|+||||+||||||+.+||+...++.+|+.++||+||++|+...++++|+.+++.
T Consensus       160 ~VG~e~~~~kl~~~L~~d--~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~  237 (889)
T KOG4658|consen  160 DVGLETMLEKLWNRLMED--DVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGL  237 (889)
T ss_pred             cccHHHHHHHHHHHhccC--CCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhcc
Confidence             99999999999999988  449999999999999999999999993399999999999999999999999999999988


Q ss_pred             CCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCcccccccccccCCCC
Q 043249          237 STDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLTL  286 (287)
Q Consensus       237 ~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~~~i~~~~p~~  286 (287)
                      ....+...+.++++..|.+.|++|||||||||||+ +.+|+.|+.|||..
T Consensus       238 ~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~-~~dw~~I~~~~p~~  286 (889)
T KOG4658|consen  238 LDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWE-EVDWDKIGVPFPSR  286 (889)
T ss_pred             CCcccchhhHHHHHHHHHHHhccCceEEEEecccc-cccHHhcCCCCCCc
Confidence            66556666668999999999999999999999999 99999999999985

>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=99.89  E-value=1.2e-22  Score=177.18  Aligned_cols=124  Identities=34%  Similarity=0.598  Sum_probs=102.8

Q ss_pred             hHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC
Q 043249          160 QESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD  239 (287)
Q Consensus       160 r~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~  239 (287)
                      ||.++++|.+.|.....+.++|+|+||||+||||||+.+|++. .++.+|+.++|+.++..++...+++.|+.+++....
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            6889999999999855689999999999999999999999987 679999999999999999999999999999988543


Q ss_pred             CC-CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCcccccccccccCCC
Q 043249          240 SW-QGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVPLLT  285 (287)
Q Consensus       240 ~~-~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~~~i~~~~p~  285 (287)
                      .. ...+...+...|++.|.+++|||||||||+ ...|+.+..++|.
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~-~~~~~~l~~~~~~  125 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWD-EEDLEELREPLPS  125 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-S-HHHH-------HC
T ss_pred             ccccccccccccccchhhhccccceeeeeeecc-ccccccccccccc
Confidence            33 556788899999999999999999999999 8899998877764

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=99.62  E-value=6.3e-15  Score=150.33  Aligned_cols=119  Identities=20%  Similarity=0.332  Sum_probs=87.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE---ecCC-----------
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV---VSRE-----------  220 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~---vs~~-----------  220 (287)
                      +.+||++..++++..+|..+..+.++|+||||||+||||||+.+|+..   ..+|+..+|+.   ++..           
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            468999999999999987666689999999999999999999999965   67899888763   1211           


Q ss_pred             CC-HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCccccccccccc
Q 043249          221 PN-LMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLGVP  282 (287)
Q Consensus       221 ~~-~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~~~i~~~  282 (287)
                      ++ ...+++.++.++.... ......    ...+++.|++||+||||||||+ ..+|+.+...
T Consensus       261 ~~~~~~l~~~~l~~il~~~-~~~~~~----~~~~~~~L~~krvLLVLDdv~~-~~~l~~L~~~  317 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKK-DIKIYH----LGAMEERLKHRKVLIFIDDLDD-QDVLDALAGQ  317 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCC-CcccCC----HHHHHHHHhCCeEEEEEeCCCC-HHHHHHHHhh
Confidence            11 1245555555543211 111111    1457888999999999999999 8889888653

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.19  E-value=4.1e-10  Score=102.72  Aligned_cols=117  Identities=20%  Similarity=0.213  Sum_probs=86.7

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      ++.++||++++++|...|...  +.....+-|+|++|+||||+++.++++. ......-..+++......+...++..|+
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            467899999999999988543  2344567899999999999999999987 3332223456666666667889999999


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .++.....+....+..++...+.+.+.  ++..+||||+++.
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~  149 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINY  149 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhH
Confidence            998752222233456677777888776  4568999999986

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.07  E-value=2.9e-09  Score=96.13  Aligned_cols=118  Identities=17%  Similarity=0.212  Sum_probs=83.6

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCC---CEEEEEEecCCCCHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF---DVVIWSVVSREPNLMQIQE  228 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F---~~~~wv~vs~~~~~~~i~~  228 (287)
                      ++.++||+++++.|...|.+.  +.....+.|+|++|+|||++++.+++...+.....   -..+|+......+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            457899999999999998752  23456789999999999999999998751111111   1356777766667888999


Q ss_pred             HHHHHhCC--CCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          229 DIGKRIGF--STDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       229 ~i~~~~~~--~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .|+.++..  ...+....+..++...+.+.+.  +++++||||++..
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~  140 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDY  140 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhh
Confidence            99999841  1111123345556666666664  5689999999987

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.

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

Probab=98.99  E-value=1.6e-09  Score=92.12  Aligned_cols=99  Identities=17%  Similarity=0.124  Sum_probs=67.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC--CCHHHHHHHHHHHhCCCCCCCCCCCHH------H
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE--PNLMQIQEDIGKRIGFSTDSWQGKSFE------E  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~i~~~~~~~~~~~~~~~~~------~  248 (287)
                      +...++|+|++|+|||||++.+|+.. .. .+|+.++|++++++  +++.++++.|...+-....  +.....      .
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~~-~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~--~~~~~~~~~~~~~   90 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-TK-NHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTF--DEPPERHVQVAEM   90 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-cc-ccCCeEEEEEEccCCCccHHHHHHHhccEEEEecC--CCCHHHHHHHHHH
Confidence            55788999999999999999999987 43 39999999998887  8999999999443222111  111111      1


Q ss_pred             HHHHHHHH-hCCCcEEEEEeCCCCcccccccc
Q 043249          249 RASDITNT-LKHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 l~~~l~~~-l~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ..+..... -.+++.+|++|++..-....+.+
T Consensus        91 ~~~~a~~~~~~G~~vll~iDei~r~a~a~~ev  122 (249)
T cd01128          91 VLEKAKRLVEHGKDVVILLDSITRLARAYNTV  122 (249)
T ss_pred             HHHHHHHHHHCCCCEEEEEECHHHhhhhhhhc
Confidence            12222222 24899999999997633334443

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.89  E-value=4.2e-09  Score=93.73  Aligned_cols=91  Identities=16%  Similarity=0.178  Sum_probs=63.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC--CHHHHHHHHHHHhCCCCCCCCCCCHHHH-----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP--NLMQIQEDIGKRIGFSTDSWQGKSFEER-----  249 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~--~~~~i~~~i~~~~~~~~~~~~~~~~~~l-----  249 (287)
                      +-.-..|+|++|+|||||++.||+.. .. .||++++||++++.+  .+.++++.|...+-.+  ..+.......     
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I-~~-nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~s--t~d~~~~~~~~~a~~  243 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSI-TT-NHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAS--TFDEPAERHVQVAEM  243 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHH-Hh-hcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEE--CCCCCHHHHHHHHHH
Confidence            44667899999999999999999987 43 399999999999998  7888888887422211  1111111111     


Q ss_pred             HHHHHHH--hCCCcEEEEEeCCCC
Q 043249          250 ASDITNT--LKHKKFVLLSDDIWE  271 (287)
Q Consensus       250 ~~~l~~~--l~~kr~LlVLDDvw~  271 (287)
                      .-...++  -.++..||++|++..
T Consensus       244 ~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        244 VIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHcCCCEEEEEEChHH
Confidence            1111222  358999999999965

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

Probab=98.84  E-value=9.7e-08  Score=82.46  Aligned_cols=88  Identities=19%  Similarity=0.322  Sum_probs=60.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      ...++.|+|++|+|||||++.+++.. .. ..+ ...|+ ++...+..+++..|+..++.+..   ..+...+...|...
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~~  114 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELEDF  114 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHHH
Confidence            45688999999999999999999976 31 221 22333 33346788899999998876432   23333333344332


Q ss_pred             -----hCCCcEEEEEeCCCC
Q 043249          257 -----LKHKKFVLLSDDIWE  271 (287)
Q Consensus       257 -----l~~kr~LlVLDDvw~  271 (287)
                           ..+++++||+||++.
T Consensus       115 l~~~~~~~~~~vliiDe~~~  134 (269)
T TIGR03015       115 LIEQFAAGKRALLVVDEAQN  134 (269)
T ss_pred             HHHHHhCCCCeEEEEECccc
Confidence                 257899999999988

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.

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

Probab=98.84  E-value=1e-08  Score=78.57  Aligned_cols=93  Identities=22%  Similarity=0.328  Sum_probs=66.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccc--cCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSE--EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDIT  254 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v--~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~  254 (287)
                      +.+++.|+|.+|+|||++++.+.+.....  ...-...+|+.++...+...+...|+..++.....  ..+...+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            45788999999999999999998875110  00133567999888889999999999999874332  356777888888


Q ss_pred             HHhCCCc-EEEEEeCCCC
Q 043249          255 NTLKHKK-FVLLSDDIWE  271 (287)
Q Consensus       255 ~~l~~kr-~LlVLDDvw~  271 (287)
                      +.+...+ .+||+||+..
T Consensus        81 ~~l~~~~~~~lviDe~~~   98 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADH   98 (131)
T ss_dssp             HHHHHCTEEEEEEETTHH
T ss_pred             HHHHhcCCeEEEEeChHh
Confidence            8887544 5999999865

>TIGR00767 rho transcription termination factor Rho

Probab=98.79  E-value=3.1e-08  Score=88.68  Aligned_cols=93  Identities=17%  Similarity=0.149  Sum_probs=65.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC--CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE--PNLMQIQEDIGKRIGFSTDSWQGKSFEERAS---  251 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~---  251 (287)
                      +-..++|+|.+|+|||||++.+++.. . ..||+..+||.++++  .++.++++.|+..+-.............++.   
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            55788999999999999999999986 3 348999999999976  7899999999654433211111111111111   


Q ss_pred             -HHHHH-hCCCcEEEEEeCCCC
Q 043249          252 -DITNT-LKHKKFVLLSDDIWE  271 (287)
Q Consensus       252 -~l~~~-l~~kr~LlVLDDvw~  271 (287)
                       ..... -.+++.+|++|++..
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhH
Confidence             12222 348999999999975

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

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

Probab=98.78  E-value=2.4e-08  Score=80.99  Aligned_cols=46  Identities=26%  Similarity=0.436  Sum_probs=33.1

Q ss_pred             ccchHHHHHHHHHHHh-ccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCIT-EQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~-~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++||+++++++...|. ..+...+.+.|+|.+|+|||+|.+.++...
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999994 223467899999999999999999999887

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

Probab=98.69  E-value=4.1e-07  Score=81.68  Aligned_cols=115  Identities=18%  Similarity=0.237  Sum_probs=87.5

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      +..+.+|+++++++...|..-  +..+.-+-|+|.+|+|||+.++.+...........+ .+.|.+-...++.+++..|+
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          16 PEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence            345899999999999988642  223344889999999999999999998732222333 67888888889999999999


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .+++.  .+....+..+....+.+.+.  ++.+++|||++..
T Consensus        95 ~~~~~--~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~  134 (366)
T COG1474          95 NKLGK--VPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDA  134 (366)
T ss_pred             HHcCC--CCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhh
Confidence            99873  12234555666677777776  5899999999976

>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=98.64  E-value=3.9e-07  Score=70.31  Aligned_cols=58  Identities=26%  Similarity=0.326  Sum_probs=43.2

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE  220 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~  220 (287)
                      +|++..+..+...+...  ..+.+.|+|.+|+|||||++.+++.. .  ..-...+++..+..
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~-~--~~~~~v~~~~~~~~   58 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANEL-F--RPGAPFLYLNASDL   58 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHh-h--cCCCCeEEEehhhh
Confidence            36788888888888765  56788899999999999999999976 2  22234556655543

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.

>PTZ00202 tuzin; Provisional

Probab=98.60  E-value=6.6e-07  Score=80.70  Aligned_cols=100  Identities=16%  Similarity=0.185  Sum_probs=68.8

Q ss_pred             CCcccchHHHHHHHHHHHhccC-CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQK-KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      .+.|+||+.+...+...|...+ ....++.|.|++|+|||||++.+....     ++ ....+...   +..++++.|+.
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l-----~~-~qL~vNpr---g~eElLr~LL~  331 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE-----GM-PAVFVDVR---GTEDTLRSVVK  331 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC-----Cc-eEEEECCC---CHHHHHHHHHH
Confidence            5678999999999999886532 345699999999999999999998755     22 22222222   67999999999


Q ss_pred             HhCCCCCCCCCCCHHHHHHHHHHHh-----C-CCcEEEEE
Q 043249          233 RIGFSTDSWQGKSFEERASDITNTL-----K-HKKFVLLS  266 (287)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~~l-----~-~kr~LlVL  266 (287)
                      .++.+..    ....++...|.+.|     . +++-+||+
T Consensus       332 ALGV~p~----~~k~dLLrqIqeaLl~~~~e~GrtPVLII  367 (550)
T PTZ00202        332 ALGVPNV----EACGDLLDFISEACRRAKKMNGETPLLVL  367 (550)
T ss_pred             HcCCCCc----ccHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            9997321    22233444444333     2 56666665

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

Probab=98.55  E-value=9.2e-07  Score=80.53  Aligned_cols=107  Identities=16%  Similarity=0.164  Sum_probs=73.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI  234 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~  234 (287)
                      .++++.+...+.+...|...    +.+.++|++|+||||+|+.+.+.. ....+|+.+.||.+++.++..+++..+.-. 
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-  248 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-  248 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCCC-
Confidence            45688899999999988754    567789999999999999999887 555678899999999998877766533110 


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          235 GFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       235 ~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                         ..+..-.+ ....+.+...-.  +++|+||+|++-.
T Consensus       249 ---~vgy~~~~-G~f~~~~~~A~~~p~~~~vliIDEINR  283 (459)
T PRK11331        249 ---GVGFRRKD-GIFYNFCQQAKEQPEKKYVFIIDEINR  283 (459)
T ss_pred             ---CCCeEecC-chHHHHHHHHHhcccCCcEEEEehhhc
Confidence               00110000 012222333322  4789999999975

>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=98.52  E-value=1.7e-07  Score=78.72  Aligned_cols=44  Identities=34%  Similarity=0.491  Sum_probs=36.9

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+||+.++++|.+++..+  ..+.+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            689999999999999876  67889999999999999999998865

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.40  E-value=4.2e-06  Score=81.27  Aligned_cols=117  Identities=15%  Similarity=0.058  Sum_probs=77.6

Q ss_pred             CCcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHhccc--cCCCCE--EEEEEecCCCCHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSE--EHDFDV--VIWSVVSREPNLMQI  226 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v--~~~F~~--~~wv~vs~~~~~~~i  226 (287)
                      ++.++||++++++|...|.+.   .....++-|+|++|+|||++++.|.......  ......  .++|....-.++..+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            456889999999999988652   2233677899999999999999998765211  112222  345554445578889


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC---CCcEEEEEeCCCC
Q 043249          227 QEDIGKRIGFSTDSWQGKSFEERASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       227 ~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                      ...|..++.... +....+.......+...+.   ....+||||||..
T Consensus       834 YqvI~qqL~g~~-P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~  880 (1164)
T PTZ00112        834 YQVLYKQLFNKK-PPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDY  880 (1164)
T ss_pred             HHHHHHHHcCCC-CCccccHHHHHHHHHhhhhcccccceEEEeehHhh
Confidence            999999885422 2223333445555555542   2346999999875

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.40  E-value=4.3e-05  Score=73.52  Aligned_cols=126  Identities=16%  Similarity=0.088  Sum_probs=77.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCC---EEEEEEecCC---CCHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD---VVIWSVVSRE---PNLMQIQE  228 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~---~~~wv~vs~~---~~~~~i~~  228 (287)
                      +.++|.+..+..+.+.+...  ....+.|+|++|+||||||+.+++.. .....+.   ...|+.++..   .+...+..
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~  230 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVDGTTLRWDPREVTN  230 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEechhccCCHHHHhH
Confidence            45789999888888777544  56679999999999999999999876 4333331   2456665432   12222221


Q ss_pred             HH---------------HHHhCCCC----------------CCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCc-cccc
Q 043249          229 DI---------------GKRIGFST----------------DSWQGKSFEERASDITNTLKHKKFVLLSDDIWES-EIDL  276 (287)
Q Consensus       229 ~i---------------~~~~~~~~----------------~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~-~~~~  276 (287)
                      .+               +...+...                +.....+. ..+..|.+.+++++++++.|+.|.+ ...|
T Consensus       231 ~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~-~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~  309 (615)
T TIGR02903       231 PLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDP-LLQNKLLKVLEDKRVEFSSSYYDPDDPNVP  309 (615)
T ss_pred             HhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCH-HHHHHHHHHHhhCeEEeecceeccCCcccc
Confidence            11               11112100                01122232 3567889999999999998877762 2346


Q ss_pred             ccccccCC
Q 043249          277 TKLGVPLL  284 (287)
Q Consensus       277 ~~i~~~~p  284 (287)
                      +.++..|+
T Consensus       310 ~~ik~~~~  317 (615)
T TIGR02903       310 KYIKKLFE  317 (615)
T ss_pred             hhhhhhcc
Confidence            66654433

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.

>PF05729 NACHT: NACHT domain

Probab=98.39  E-value=1.9e-06  Score=68.28  Aligned_cols=84  Identities=21%  Similarity=0.292  Sum_probs=52.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCC----CCEEEEEEecCCCCHH---HHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHD----FDVVIWSVVSREPNLM---QIQEDIGKRIGFSTDSWQGKSFEERAS  251 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~~~---~i~~~i~~~~~~~~~~~~~~~~~~l~~  251 (287)
                      +++.|+|.+|+||||+++.+.... .....    +...+|.+.+......   .+...|..+....     ......   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~-----~~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQL-AEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPES-----IAPIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHH-HhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccc-----hhhhHH---
Confidence            478899999999999999999877 33332    4566777766543332   3444444443321     111111   


Q ss_pred             HHHHH-hCCCcEEEEEeCCCC
Q 043249          252 DITNT-LKHKKFVLLSDDIWE  271 (287)
Q Consensus       252 ~l~~~-l~~kr~LlVLDDvw~  271 (287)
                      .+... -..++++||||++.+
T Consensus        72 ~~~~~~~~~~~~llilDglDE   92 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDE   92 (166)
T ss_pred             HHHHHHHcCCceEEEEechHh
Confidence            12222 247899999999976

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

Probab=98.36  E-value=1.3e-06  Score=77.40  Aligned_cols=87  Identities=21%  Similarity=0.301  Sum_probs=54.9

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      +.+++|-+..+.++   +..+  .+.-.-.||++|+||||||+.+....   ..+|     ..+|...+-.+=++.|++.
T Consensus        29 Q~HLlg~~~~lrr~---v~~~--~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f-----~~~sAv~~gvkdlr~i~e~   95 (436)
T COG2256          29 QEHLLGEGKPLRRA---VEAG--HLHSMILWGPPGTGKTTLARLIAGTT---NAAF-----EALSAVTSGVKDLREIIEE   95 (436)
T ss_pred             hHhhhCCCchHHHH---HhcC--CCceeEEECCCCCCHHHHHHHHHHhh---CCce-----EEeccccccHHHHHHHHHH
Confidence            34445554444444   4444  66666799999999999999998865   3344     4455544444444444443


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          234 IGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       234 ~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..                  .....+++.+|++|+|..
T Consensus        96 a~------------------~~~~~gr~tiLflDEIHR  115 (436)
T COG2256          96 AR------------------KNRLLGRRTILFLDEIHR  115 (436)
T ss_pred             HH------------------HHHhcCCceEEEEehhhh
Confidence            21                  122338899999999965

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

Probab=98.35  E-value=3.3e-06  Score=74.32  Aligned_cols=118  Identities=18%  Similarity=0.231  Sum_probs=84.0

Q ss_pred             CCcccchHHHHHHHHHHHhccCC-CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKK-NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~-~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      ++.+.+|+.+...+..++...+. -+..+-|+|-.|.|||.+.+.+++.. ..     ..+|+++-..|+..-++..|+.
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            56788999999999998876654 34566899999999999999999976 32     3589999999999999999999


Q ss_pred             HhCCCC-CCCCCC----CHHHHHHHHHH--HhC--CCcEEEEEeCCCCccccccc
Q 043249          233 RIGFST-DSWQGK----SFEERASDITN--TLK--HKKFVLLSDDIWESEIDLTK  278 (287)
Q Consensus       233 ~~~~~~-~~~~~~----~~~~l~~~l~~--~l~--~kr~LlVLDDvw~~~~~~~~  278 (287)
                      +.+... .+....    +.......+.+  ...  ++.++||||++.. -.+.+.
T Consensus        79 ~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~-lrD~~a  132 (438)
T KOG2543|consen   79 KSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADA-LRDMDA  132 (438)
T ss_pred             HhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHh-hhccch
Confidence            986322 111111    11122223333  222  4689999999976 444443

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

Probab=98.35  E-value=1.8e-06  Score=75.64  Aligned_cols=91  Identities=23%  Similarity=0.310  Sum_probs=61.6

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      +..++|.+.-+..+   +..+  .+.-+-+||++|+||||||+.+.+..   +.+-  ..||..|....-.+=+++|+++
T Consensus       143 Q~hlv~q~gllrs~---ieq~--~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  143 QSHLVGQDGLLRSL---IEQN--RIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             hhhhcCcchHHHHH---HHcC--CCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHH
Confidence            34445544333333   3334  56667799999999999999998865   2221  5678888877777777777776


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          234 IGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       234 ~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ...                 ...+.++|-+|.+|+|..
T Consensus       213 aq~-----------------~~~l~krkTilFiDEiHR  233 (554)
T KOG2028|consen  213 AQN-----------------EKSLTKRKTILFIDEIHR  233 (554)
T ss_pred             HHH-----------------HHhhhcceeEEEeHHhhh
Confidence            432                 123457888999999854

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.34  E-value=1.5e-06  Score=79.79  Aligned_cols=46  Identities=33%  Similarity=0.450  Sum_probs=36.2

Q ss_pred             CcccchHHHHHH---HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQ---VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~---l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..+..   +.+++..+  ....+.++|++|+||||||+.+.+..
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            347888777555   66666655  56678889999999999999998865

>PRK08118 topology modulation protein; Reviewed

Probab=98.18  E-value=1.1e-06  Score=70.46  Aligned_cols=51  Identities=35%  Similarity=0.631  Sum_probs=35.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhcccc-CCCCEEE----EEEecCCCCHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEE-HDFDVVI----WSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~-~~F~~~~----wv~vs~~~~~~~i~~~i~~  232 (287)
                      -|.|+|++|+||||||+.+++.. ... -+||..+    |..+++. ....++++++.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l-~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~~~   58 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL-NIPVHHLDALFWKPNWEGVPKE-EQITVQNELVK   58 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-CCCceecchhhcccCCcCCCHH-HHHHHHHHHhc
Confidence            58899999999999999999987 444 4688777    4444432 33344444443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.10  E-value=3e-05  Score=68.27  Aligned_cols=113  Identities=16%  Similarity=0.132  Sum_probs=67.7

Q ss_pred             CcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      ..|+|+++.++.|..++...   ......+-++|++|+|||+||+.+.+.. .  ..|   ..+..+....... +...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~-~--~~~---~~~~~~~~~~~~~-l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM-G--VNL---KITSGPALEKPGD-LAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh-C--CCE---EEeccchhcCchh-HHHHH
Confidence            35899999999998888632   2345667899999999999999998876 2  222   1222221112222 33334


Q ss_pred             HHhCCCC----CCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCccccc
Q 043249          232 KRIGFST----DSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDL  276 (287)
Q Consensus       232 ~~~~~~~----~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~  276 (287)
                      ..++...    +.....+. .....+...+.+.+..+|+++..+ ...|
T Consensus        77 ~~~~~~~vl~iDEi~~l~~-~~~e~l~~~~~~~~~~~v~~~~~~-~~~~  123 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSP-AVEELLYPAMEDFRLDIVIGKGPS-ARSV  123 (305)
T ss_pred             HhcccCCEEEEehHhhhCH-HHHHHhhHHHhhhheeeeeccCcc-ccce
Confidence            4443211    00111111 234557777778888899998776 4443

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.

>PF13173 AAA_14: AAA domain

Probab=98.06  E-value=1.1e-05  Score=61.75  Aligned_cols=78  Identities=23%  Similarity=0.207  Sum_probs=48.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTL  257 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l  257 (287)
                      .+++.|.|+.|+|||||++.++.+. .   .....++++..........                  ..+ +.+.+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~-~---~~~~~~yi~~~~~~~~~~~------------------~~~-~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL-L---PPENILYINFDDPRDRRLA------------------DPD-LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh-c---ccccceeeccCCHHHHHHh------------------hhh-hHHHHHHhh
Confidence            4689999999999999999999876 2   3344556555443111000                  000 223334444


Q ss_pred             CCCcEEEEEeCCCCcccccccc
Q 043249          258 KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       258 ~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ..++.+|+||+|-. ..+|...
T Consensus        59 ~~~~~~i~iDEiq~-~~~~~~~   79 (128)
T PF13173_consen   59 KPGKKYIFIDEIQY-LPDWEDA   79 (128)
T ss_pred             ccCCcEEEEehhhh-hccHHHH
Confidence            44778899999988 6666543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.00  E-value=6.7e-05  Score=75.68  Aligned_cols=106  Identities=19%  Similarity=0.195  Sum_probs=67.8

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEec-CCCCHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVS-REPNLMQIQEDIGK  232 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs-~~~~~~~i~~~i~~  232 (287)
                      .+.++-|..-.+    .|.. ....+++.|.|++|.||||++.......       ..++|+++. .+.++..+...++.
T Consensus        13 ~~~~~~R~rl~~----~l~~-~~~~~~~~v~apaG~GKTtl~~~~~~~~-------~~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841         13 LHNTVVRERLLA----KLSG-ANNYRLVLVTSPAGYGKTTLISQWAAGK-------NNLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             ccccCcchHHHH----HHhc-ccCCCeEEEECCCCCCHHHHHHHHHHhC-------CCeEEEecCcccCCHHHHHHHHHH
Confidence            345566664444    3432 2367899999999999999999987532       268999996 45566777777777


Q ss_pred             HhCCCCCC-----------CCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          233 RIGFSTDS-----------WQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       233 ~~~~~~~~-----------~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .+......           ....+...+...+...+.  +.+++|||||+..
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~  132 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHL  132 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCc
Confidence            77421110           011223333344444443  6899999999965

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

Probab=97.99  E-value=2.1e-05  Score=76.65  Aligned_cols=45  Identities=40%  Similarity=0.606  Sum_probs=34.9

Q ss_pred             cccchHHHHH---HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILD---QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~---~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++|.+..+.   .+.+.+..+  ....+-++|++|+||||||+.+++..
T Consensus        29 d~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~~   76 (725)
T PRK13341         29 EFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANHT   76 (725)
T ss_pred             HhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4788887664   455555554  56677899999999999999999865

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.98  E-value=4.1e-05  Score=58.25  Aligned_cols=87  Identities=22%  Similarity=0.045  Sum_probs=47.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTL  257 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l  257 (287)
                      ...+.|+|.+|+||||+++.+.... .  ......+.+..+........... ......   .............+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~-~--~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~   74 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALAREL-G--PPGGGVIYIDGEDILEEVLDQLL-LIIVGG---KKASGSGELRLRLALALA   74 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcc-C--CCCCCEEEECCEEccccCHHHHH-hhhhhc---cCCCCCHHHHHHHHHHHH
Confidence            3578899999999999999998866 2  22223445544443222222211 011111   111222333333444444


Q ss_pred             CCC-cEEEEEeCCCC
Q 043249          258 KHK-KFVLLSDDIWE  271 (287)
Q Consensus       258 ~~k-r~LlVLDDvw~  271 (287)
                      +.. ..+|++|++..
T Consensus        75 ~~~~~~viiiDei~~   89 (148)
T smart00382       75 RKLKPDVLILDEITS   89 (148)
T ss_pred             HhcCCCEEEEECCcc
Confidence            443 49999999988

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.94  E-value=0.0001  Score=65.64  Aligned_cols=109  Identities=16%  Similarity=0.123  Sum_probs=65.5

Q ss_pred             CcccchHHHHHHHHHHHhc---cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITE---QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      .+++|+++.++.+..++..   .......+-++|++|+||||||+.+.+.. .  ..|   .++..+ ......-+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l-~--~~~---~~~~~~-~~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM-G--VNI---RITSGP-ALEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh-C--CCe---EEEecc-cccChHHHHHHH
Confidence            4589999999998877753   23346678899999999999999999976 3  222   112211 122223344455


Q ss_pred             HHhCCCC----CCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          232 KRIGFST----DSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~----~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..+....    +.....+ ....+.+...+.+.+..+++|+..+
T Consensus        98 ~~l~~~~vl~IDEi~~l~-~~~~e~l~~~~e~~~~~~~l~~~~~  140 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLS-PVVEEILYPAMEDFRLDIMIGKGPA  140 (328)
T ss_pred             HhcccCCEEEEecHhhcc-hHHHHHHHHHHHhcceeeeeccCcc
Confidence            5443211    0001111 1223446667777788888888665

>PRK07261 topology modulation protein; Provisional

Probab=97.92  E-value=3.9e-05  Score=61.69  Aligned_cols=35  Identities=23%  Similarity=0.496  Sum_probs=25.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhcccc-CCCCEEEEE
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEE-HDFDVVIWS  215 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~-~~F~~~~wv  215 (287)
                      .|.|+|++|+||||||+.+.... ... -+.|...|-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~-~~~~i~~D~~~~~   37 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY-NCPVLHLDTLHFQ   37 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh-CCCeEecCCEEec
Confidence            47899999999999999997764 222 245555563

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

Probab=97.91  E-value=0.00025  Score=61.41  Aligned_cols=114  Identities=15%  Similarity=0.188  Sum_probs=78.4

Q ss_pred             CcccchH---HHHHHHHHHHhccC-CCceEEEEEccCCCcHHHHHHHHHHHhccccCCC----CEEEEEEecCCCCHHHH
Q 043249          155 RTIVGQE---SILDQVWRCITEQK-KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF----DVVIWSVVSREPNLMQI  226 (287)
Q Consensus       155 ~~~vGr~---~~~~~l~~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F----~~~~wv~vs~~~~~~~i  226 (287)
                      +..+|..   ..++++.++|..+. ....-+.|||..|.|||++++...... -....=    -+++.|.....++...+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~h-p~~~d~~~~~~PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLH-PPQSDEDAERIPVVYVQMPPEPDERRF  112 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHC-CCCCCCCCccccEEEEecCCCCChHHH
Confidence            3456643   44566666665542 344668999999999999999998765 221111    15667788889999999


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          227 QEDIGKRIGFSTDSWQGKSFEERASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       227 ~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...|+.+++.+..  ...+...+.......|+ -+-=+||+|++.+
T Consensus       113 Y~~IL~~lgaP~~--~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  113 YSAILEALGAPYR--PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             HHHHHHHhCcccC--CCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            9999999998643  23344555555555665 3556899999976

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

>PRK04195 replication factor C large subunit; Provisional

Probab=97.90  E-value=7.6e-05  Score=69.98  Aligned_cols=48  Identities=31%  Similarity=0.496  Sum_probs=40.4

Q ss_pred             CcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+.+|+..-  +...+.+-|+|++|+||||+|+.+.+..
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            45899999999999998642  2236788999999999999999999875

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.89  E-value=4.4e-05  Score=64.05  Aligned_cols=55  Identities=16%  Similarity=0.274  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          160 QESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       160 r~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      .+..++.+.+++...  ....+.|+|..|+||||||+.+++.. .  ......+++.++.
T Consensus        22 ~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKT~la~~~~~~~-~--~~~~~~~~i~~~~   76 (226)
T TIGR03420        22 NAELLAALRQLAAGK--GDRFLYLWGESGSGKSHLLQAACAAA-E--ERGKSAIYLPLAE   76 (226)
T ss_pred             cHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHH-H--hcCCcEEEEeHHH
Confidence            445667777665543  56788899999999999999999876 2  2333445555543

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.85  E-value=5.1e-05  Score=75.55  Aligned_cols=46  Identities=20%  Similarity=0.408  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++||+.+++.+++.|...  ...-+.++|.+|+|||++|+.+....
T Consensus       179 ~~~igr~~ei~~~~~~L~r~--~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRR--TKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccc--ccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999876  33344599999999999999997765

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.85  E-value=0.00013  Score=65.22  Aligned_cols=114  Identities=14%  Similarity=0.120  Sum_probs=68.9

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE-EEEEEecCC-CCHHHHHHHHHHHhCCCCCC
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV-VIWSVVSRE-PNLMQIQEDIGKRIGFSTDS  240 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~-~~wv~vs~~-~~~~~i~~~i~~~~~~~~~~  240 (287)
                      ...++++.+..=. +-.-+.|+|..|+|||||++.+.+.. . .++=+. ++|+.+.+. ..+.++.+.+...+..+...
T Consensus       119 ~~~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~i-~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~d  195 (380)
T PRK12608        119 LSMRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAAV-A-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFD  195 (380)
T ss_pred             hhHhhhhheeecC-CCceEEEECCCCCCHHHHHHHHHHHH-H-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCC
Confidence            3445777776432 33456899999999999999988865 2 223344 578788764 45778888888766543211


Q ss_pred             CCCCC---HHHHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          241 WQGKS---FEERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       241 ~~~~~---~~~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      .....   .......+.+++  .+++.+||+|++..-......+
T Consensus       196 e~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A~A~rei  239 (380)
T PRK12608        196 RPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNE  239 (380)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHHHHHHhh
Confidence            11111   111112223333  3899999999996522334444

>TIGR00763 lon ATP-dependent protease La

Probab=97.84  E-value=0.00069  Score=67.19  Aligned_cols=49  Identities=27%  Similarity=0.431  Sum_probs=39.2

Q ss_pred             CCcccchHHHHHHHHHHHhcc----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++|.+..++.|.+++...    ..+..++.++|++|+||||+|+.+.+..
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            345789999999998876422    2244589999999999999999999876

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=97.84  E-value=0.0001  Score=62.25  Aligned_cols=39  Identities=26%  Similarity=0.386  Sum_probs=28.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEec
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVS  218 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  218 (287)
                      ..+.+.++|.+|+|||+|++.+.+.. .  .+.....|++++
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~-~--~~~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHY-L--LNQRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCCeEEeeHH
Confidence            34568899999999999999999976 2  122344666664

>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=97.84  E-value=5.9e-05  Score=63.56  Aligned_cols=37  Identities=30%  Similarity=0.379  Sum_probs=30.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV  217 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v  217 (287)
                      .--+.|+|..|+|||||...+....   ...|.++.+++-
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            3467899999999999999998865   678977776654

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

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

Probab=97.83  E-value=0.0001  Score=72.60  Aligned_cols=46  Identities=20%  Similarity=0.378  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++||+++++++++.|...  ...-+-++|.+|+|||++|+.+....
T Consensus       182 ~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999988766  33445699999999999999998865

>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=97.80  E-value=2.8e-05  Score=64.39  Aligned_cols=48  Identities=27%  Similarity=0.429  Sum_probs=34.0

Q ss_pred             CcccchHHHHHHHHHHHh---ccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT---EQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||.++-+..+.-++.   ...+.+..+-.||++|+||||||..+.+..
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~   74 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL   74 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc
Confidence            468999988877654443   233467888899999999999999999976

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.

>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=97.80  E-value=4.7e-05  Score=57.88  Aligned_cols=22  Identities=41%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |-|+|.+|+||||+|+.+.+..
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 ....

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

Probab=97.74  E-value=0.00059  Score=64.92  Aligned_cols=106  Identities=15%  Similarity=0.256  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhCcccccccc------cccc--ccccccC-------CCCcccchHHHHHHHHHHHh----cc
Q 043249          114 DFGKKVEKLKEEVIKLWEKGEAMKEVYE------GVPE--GAAVAMA-------VDRTIVGQESILDQVWRCIT----EQ  174 (287)
Q Consensus       114 ~~~~~i~~~~~~l~~l~~~~~~~~~~~~------~~~~--~~~~~~~-------~~~~~vGr~~~~~~l~~~L~----~~  174 (287)
                      ...+.+.+-..+++.+......|+..-+      ..|.  .+.+...       .+.+-+|+++-+++|++++-    .+
T Consensus       355 ~v~kv~~eEl~kL~~le~~~sEfnvtrNYLdwlt~LPWgk~S~En~dl~~Ak~iLdeDHYgm~dVKeRILEfiAV~kLrg  434 (906)
T KOG2004|consen  355 HVLKVIDEELTKLKLLEPSSSEFNVTRNYLDWLTSLPWGKSSTENLDLARAKEILDEDHYGMEDVKERILEFIAVGKLRG  434 (906)
T ss_pred             HHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhCCCCCCChhhhhHHHHHHhhcccccchHHHHHHHHHHHHHHhhcc
Confidence            3445566666666666655555654322      1121  1111111       13445999999999999884    23


Q ss_pred             CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHH
Q 043249          175 KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQ  225 (287)
Q Consensus       175 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~  225 (287)
                      ..+-+++..+|++|||||.+++.|....   ...|   +-++|+.-.|..+
T Consensus       435 s~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkF---fRfSvGG~tDvAe  479 (906)
T KOG2004|consen  435 SVQGKILCFVGPPGVGKTSIAKSIARAL---NRKF---FRFSVGGMTDVAE  479 (906)
T ss_pred             cCCCcEEEEeCCCCCCcccHHHHHHHHh---CCce---EEEeccccccHHh
Confidence            4577999999999999999999999876   3344   2345555444433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.73  E-value=0.00012  Score=66.18  Aligned_cols=48  Identities=27%  Similarity=0.340  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhcc----C-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ----K-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~----~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|+++.+++|.+.+...    +       ...+-+.++|++|+|||+||+.+.+..
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            45789999999998876421    0       234568899999999999999999965

Many proteins may score above the trusted cutoff because an internal

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.72  E-value=0.00016  Score=65.82  Aligned_cols=48  Identities=29%  Similarity=0.320  Sum_probs=38.1

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++.|+++.++++.+.+...           -...+-|.++|++|+|||++|+.+.+..
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            45789999999988876321           1245668899999999999999999875

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

Probab=97.68  E-value=0.00052  Score=62.28  Aligned_cols=115  Identities=17%  Similarity=0.182  Sum_probs=76.2

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      +..++||+.++..+-+++...  ....+-+-|.|.+|.|||.+...++.+.......| +++.+..-.=.....++..|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~-~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSP-VTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccc-eeEEEeeccccchHHHHHHHH
Confidence            456899999999999988653  33667788899999999999999999872222222 334443332235677888888


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHhCCC--cEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTLKHK--KFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~k--r~LlVLDDvw~  271 (287)
                      ..+-....  ...+..+....+.++..+.  -||+|||++..
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~  267 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDH  267 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhH
Confidence            87721111  1112244556666666643  59999999864

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

Probab=97.66  E-value=0.00078  Score=66.60  Aligned_cols=49  Identities=29%  Similarity=0.410  Sum_probs=40.6

Q ss_pred             CCcccchHHHHHHHHHHHhcc----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+.+|.+..++.|+++|...    ..+..++.++|++|+||||+++.+....
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            455799999999999988631    2355689999999999999999998865

>PRK08116 hypothetical protein; Validated

Probab=97.66  E-value=0.00058  Score=58.98  Aligned_cols=75  Identities=27%  Similarity=0.247  Sum_probs=46.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK  258 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~  258 (287)
                      .-+-++|..|+|||.||..+++.. ..  +-..+++++      ...++..|.......    ...+...    +.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l-~~--~~~~v~~~~------~~~ll~~i~~~~~~~----~~~~~~~----~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL-IE--KGVPVIFVN------FPQLLNRIKSTYKSS----GKEDENE----IIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH-HH--cCCeEEEEE------HHHHHHHHHHHHhcc----ccccHHH----HHHHhc
Confidence            357899999999999999999987 22  223445554      345666665554321    1112222    334444


Q ss_pred             CCcEEEEEeCCCC
Q 043249          259 HKKFVLLSDDIWE  271 (287)
Q Consensus       259 ~kr~LlVLDDvw~  271 (287)
                      +-. ||||||+-.
T Consensus       178 ~~d-lLviDDlg~  189 (268)
T PRK08116        178 NAD-LLILDDLGA  189 (268)
T ss_pred             CCC-EEEEecccC
Confidence            444 899999943

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.66  E-value=0.00023  Score=62.98  Aligned_cols=77  Identities=21%  Similarity=0.349  Sum_probs=54.3

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhc---cccCCCCEEEEEEe-cCCCCHHHHHHHHH
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFC---SEEHDFDVVIWSVV-SREPNLMQIQEDIG  231 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~---~v~~~F~~~~wv~v-s~~~~~~~i~~~i~  231 (287)
                      +++|.+..++.+.+++..+ .-.+.+-++|+.|+||||+|+.++....   ....|+|...|... +....... .++++
T Consensus         5 ~i~g~~~~~~~l~~~~~~~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~   82 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKN-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNII   82 (313)
T ss_pred             hccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHH
Confidence            5789999999999988765 1345778999999999999999988531   13457787777653 44445555 34455


Q ss_pred             HHh
Q 043249          232 KRI  234 (287)
Q Consensus       232 ~~~  234 (287)
                      +.+
T Consensus        83 ~~~   85 (313)
T PRK05564         83 EEV   85 (313)
T ss_pred             HHH
Confidence            544

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.64  E-value=0.0003  Score=70.16  Aligned_cols=46  Identities=17%  Similarity=0.346  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++||+.++.++++.|...  ...-+-++|.+|+||||+|+.+....
T Consensus       187 d~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999998776  33444599999999999999998865

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.61  E-value=0.00043  Score=58.15  Aligned_cols=90  Identities=19%  Similarity=0.187  Sum_probs=55.2

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH----hCCCCCCCCCCCHHH---
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR----IGFSTDSWQGKSFEE---  248 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~----~~~~~~~~~~~~~~~---  248 (287)
                      ..-.++.|+|.+|+||||++..+....   ...-..++|++.. .++...+.+ +...    +...-.-....+..+   
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~~---~~~~~~v~yi~~e-~~~~~r~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVEA---AKNGKKVIYIDTE-GLSPERFKQ-IAGEDFEELLSNIIIFEPSSFEEQSE   95 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEECC-CCCHHHHHH-HHhhChHhHhhCeEEEeCCCHHHHHH
Confidence            356899999999999999999987765   2234678899887 666655432 3322    100000001223333   


Q ss_pred             HHHHHHHHhCCCcEEEEEeCCC
Q 043249          249 RASDITNTLKHKKFVLLSDDIW  270 (287)
Q Consensus       249 l~~~l~~~l~~kr~LlVLDDvw  270 (287)
                      ....+...+..+--++|+|.+-
T Consensus        96 ~i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         96 AIRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHHhcccEEEEeCcH
Confidence            3344444454677799999984

>PRK08727 hypothetical protein; Validated

Probab=97.61  E-value=0.00035  Score=59.08  Aligned_cols=59  Identities=19%  Similarity=0.166  Sum_probs=36.6

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      .++|-.+....+.......  ....+.|+|..|+|||+|++.+.+.. .  .+.....++++.+
T Consensus        21 f~~~~~n~~~~~~~~~~~~--~~~~l~l~G~~G~GKThL~~a~~~~~-~--~~~~~~~y~~~~~   79 (233)
T PRK08727         21 YIAAPDGLLAQLQALAAGQ--SSDWLYLSGPAGTGKTHLALALCAAA-E--QAGRSSAYLPLQA   79 (233)
T ss_pred             ccCCcHHHHHHHHHHHhcc--CCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCcEEEEeHHH
Confidence            3444444444443333322  33568999999999999999998876 2  2223445666543

>PLN03025 replication factor C subunit; Provisional

Probab=97.61  E-value=0.00054  Score=60.79  Aligned_cols=46  Identities=26%  Similarity=0.317  Sum_probs=37.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.|..++..+  +.+.+-++|++|+||||+|+.+.+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35789888888888777655  45557799999999999999998864

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.60  E-value=0.0001  Score=65.55  Aligned_cols=49  Identities=20%  Similarity=0.368  Sum_probs=42.1

Q ss_pred             CCcccchHHHHHHHHHHHhcc----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++|.++.++++++++...    +...+++.++|++|+||||||+.+.+..
T Consensus        50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            346899999999999999753    3356899999999999999999998876

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

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.60  E-value=0.00073  Score=59.67  Aligned_cols=46  Identities=30%  Similarity=0.405  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|++..++.+..++...  ..+.+-++|.+|+||||+++.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999988765  45567999999999999999998875

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

Probab=97.60  E-value=0.00046  Score=58.01  Aligned_cols=90  Identities=22%  Similarity=0.320  Sum_probs=56.7

Q ss_pred             CCcccchHHHHHHHHHHHhc--cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITE--QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      -+.++|.+..++.|++--..  ......-+-+||..|+|||+|++.+.+.. ..+.   ++ -|.|+++           
T Consensus        26 l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y-~~~G---LR-lIev~k~-----------   89 (249)
T PF05673_consen   26 LDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY-ADQG---LR-LIEVSKE-----------   89 (249)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH-hhcC---ce-EEEECHH-----------
Confidence            35689999998888764321  12245666789999999999999999876 3222   22 2233321           


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                                .-.+...+.+.|+.  +..||+|.+||+.=
T Consensus        90 ----------~L~~l~~l~~~l~~--~~~kFIlf~DDLsF  117 (249)
T PF05673_consen   90 ----------DLGDLPELLDLLRD--RPYKFILFCDDLSF  117 (249)
T ss_pred             ----------HhccHHHHHHHHhc--CCCCEEEEecCCCC
Confidence                      11233344444442  35799999999843

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.59  E-value=0.00036  Score=69.79  Aligned_cols=46  Identities=15%  Similarity=0.402  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++||+.+++++++.|...  ...-+-++|.+|+||||+|+.+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999999876  34445599999999999999998865

>PRK12377 putative replication protein; Provisional

Probab=97.57  E-value=0.00053  Score=58.40  Aligned_cols=75  Identities=23%  Similarity=0.209  Sum_probs=45.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      ....+.++|.+|+|||+||..+.+.. .  .....+++++++      +++..|-.....      ..+...    +.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l-~--~~g~~v~~i~~~------~l~~~l~~~~~~------~~~~~~----~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRL-L--AKGRSVIVVTVP------DVMSRLHESYDN------GQSGEK----FLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCCeEEEEHH------HHHHHHHHHHhc------cchHHH----HHHH
Confidence            34678899999999999999999987 2  223334555543      455555443321      111222    2222


Q ss_pred             hCCCcEEEEEeCCCC
Q 043249          257 LKHKKFVLLSDDIWE  271 (287)
Q Consensus       257 l~~kr~LlVLDDvw~  271 (287)
                      + .+-=||||||+-.
T Consensus       161 l-~~~dLLiIDDlg~  174 (248)
T PRK12377        161 L-CKVDLLVLDEIGI  174 (248)
T ss_pred             h-cCCCEEEEcCCCC
Confidence            3 3566899999944

>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=97.57  E-value=7.2e-05  Score=56.23  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ||.|.|++|+||||+|+.+.+..
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            68999999999999999998865

...

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.56  E-value=0.00035  Score=65.33  Aligned_cols=48  Identities=31%  Similarity=0.383  Sum_probs=37.0

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.+..++++.+.+.-.           -...+-+-++|++|+|||++|+.+++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            34678999888887775321           1234568899999999999999999976

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.

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

Probab=97.56  E-value=0.00039  Score=68.27  Aligned_cols=46  Identities=20%  Similarity=0.383  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++||+.+++++++.|...  ...-+-++|.+|+|||++|+.+....
T Consensus       186 ~~liGR~~ei~~~i~iL~r~--~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999988875  23334589999999999999998764

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.54  E-value=0.00052  Score=56.90  Aligned_cols=91  Identities=11%  Similarity=0.134  Sum_probs=56.5

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh-CCCCCC---CCCCCHH---H
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI-GFSTDS---WQGKSFE---E  248 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~-~~~~~~---~~~~~~~---~  248 (287)
                      ..-+++-|+|.+|+|||+++..+....   ......++|++... +++..+.+. +++. ......   ....+..   .
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~   84 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGV   84 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHH
Confidence            356899999999999999999987654   23456789999876 777665553 3221 000000   0112222   2


Q ss_pred             HHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          249 RASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       249 l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                      ....+.+.+.. +.-+||+|-+-.
T Consensus        85 ~~~~l~~~~~~~~~~lvVIDSis~  108 (209)
T TIGR02237        85 AIQKTSKFIDRDSASLVVVDSFTA  108 (209)
T ss_pred             HHHHHHHHHhhcCccEEEEeCcHH
Confidence            34555555543 456899999854

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

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.53  E-value=0.00059  Score=60.34  Aligned_cols=47  Identities=15%  Similarity=0.109  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+...+.+..++..+ .-..++-++|.+|+||||+|+.+++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            45799999999999988754 235677779999999999999998864

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.53  E-value=0.00026  Score=61.00  Aligned_cols=47  Identities=23%  Similarity=0.278  Sum_probs=33.2

Q ss_pred             cccchHHHHHHHHH---HHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWR---CITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~---~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..++.|.+   +..-          .......+.++|++|+||||+|+.+.+..
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            47898876665543   3311          12345667899999999999999998764

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.52  E-value=0.00012  Score=68.75  Aligned_cols=47  Identities=21%  Similarity=0.319  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++..+. -.+.+.++|++|+||||+|+.+.+..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            358999999998988887662 33556899999999999999998876

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.51  E-value=0.0013  Score=55.95  Aligned_cols=90  Identities=20%  Similarity=0.185  Sum_probs=51.4

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCC
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQ  242 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~  242 (287)
                      .+..+.++...-......+-++|.+|+|||+||..+.+.. ..  .-..+++++      ..+++..+-.....     .
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l-~~--~g~~v~~it------~~~l~~~l~~~~~~-----~  149 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNEL-LL--RGKSVLIIT------VADIMSAMKDTFSN-----S  149 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHH-Hh--cCCeEEEEE------HHHHHHHHHHHHhh-----c
Confidence            3444444443322234578899999999999999999977 22  222344443      34555554443321     1


Q ss_pred             CCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          243 GKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..+...    +.+.+. +.=||||||+-.
T Consensus       150 ~~~~~~----~l~~l~-~~dlLvIDDig~  173 (244)
T PRK07952        150 ETSEEQ----LLNDLS-NVDLLVIDEIGV  173 (244)
T ss_pred             cccHHH----HHHHhc-cCCEEEEeCCCC
Confidence            122222    233344 344888899966

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.49  E-value=0.00065  Score=57.33  Aligned_cols=94  Identities=14%  Similarity=0.203  Sum_probs=58.4

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCC----CCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC-------CCCC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHD----FDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS-------WQGK  244 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~-------~~~~  244 (287)
                      ..-.++.|+|.+|+|||||+..+.-.. .....    ...++|++....++...+.+ ++++.+.....       ....
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~   94 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAY   94 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecC
Confidence            456899999999999999999986443 11221    35789999888877665543 34443321100       0112


Q ss_pred             CHHH---HHHHHHHHhC-C-CcEEEEEeCCCC
Q 043249          245 SFEE---RASDITNTLK-H-KKFVLLSDDIWE  271 (287)
Q Consensus       245 ~~~~---l~~~l~~~l~-~-kr~LlVLDDvw~  271 (287)
                      +..+   +...+...+. . +--|||+|-+..
T Consensus        95 ~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          95 NSDHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             CHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            2333   3344555554 4 678999999965

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 .

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

Probab=97.48  E-value=0.0019  Score=54.15  Aligned_cols=92  Identities=14%  Similarity=0.148  Sum_probs=58.8

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCC------CEEEEEEecCCCCHHHHHHHHHHHhCCCCC----C---CC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF------DVVIWSVVSREPNLMQIQEDIGKRIGFSTD----S---WQ  242 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F------~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~----~---~~  242 (287)
                      ..-.++.|+|.+|+|||+|+..+....   ...-      ..++|+.....++...+.+ +.........    .   ..
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~   92 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLVQ-LAVRFGLDPEEVLDNIYVAR   92 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHHH-HHHHhccchhhhhccEEEEe
Confidence            356899999999999999999986643   1222      4678998888777766543 3333222100    0   11


Q ss_pred             CCCHHHHHHHHHHHhC----CCcEEEEEeCCCC
Q 043249          243 GKSFEERASDITNTLK----HKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l~~~l~~~l~----~kr~LlVLDDvw~  271 (287)
                      ..+.+++...+.+.+.    .+--|||+|.+..
T Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          93 PYNGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            2355566656655543    3556999999865

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.

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

Probab=97.47  E-value=0.00063  Score=63.66  Aligned_cols=93  Identities=19%  Similarity=0.252  Sum_probs=63.1

Q ss_pred             cccchHHHHHHHHHHHhc---cC-------CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHH
Q 043249          156 TIVGQESILDQVWRCITE---QK-------KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQ  225 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~---~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~  225 (287)
                      ++=|.+..+.++.+++..   .+       ...+=+-++|++|+|||.||+.+.+.. .       +-++.++..     
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-~-------vPf~~isAp-----  257 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-G-------VPFLSISAP-----  257 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-C-------CceEeecch-----
Confidence            345788888888877653   11       234556799999999999999999977 2       234455443     


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          226 IQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       226 i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                         +|++.+       ...++..+.+...+....-.+++++||+.-
T Consensus       258 ---eivSGv-------SGESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 ---EIVSGV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             ---hhhccc-------CcccHHHHHHHHHHHhccCCeEEEeecccc
Confidence               233322       334555555556666778899999999854

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

Probab=97.47  E-value=0.012  Score=57.49  Aligned_cols=106  Identities=22%  Similarity=0.342  Sum_probs=64.7

Q ss_pred             CCcccchHHHHHHHHHHHhc-------cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHH
Q 043249          154 DRTIVGQESILDQVWRCITE-------QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQI  226 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i  226 (287)
                      ...++|.++.++.+.+.+..       ++..+.+.-.+|+.|||||-||+.+......   .=+..+-+..|      +.
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg---~e~aliR~DMS------Ey  560 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFG---DEQALIRIDMS------EY  560 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcC---CCccceeechH------HH
Confidence            35689999999999888753       2345678888999999999999998776511   11333333333      22


Q ss_pred             H-HHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcE-EEEEeCCCC
Q 043249          227 Q-EDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKF-VLLSDDIWE  271 (287)
Q Consensus       227 ~-~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVLDDvw~  271 (287)
                      . +.-++.+-+..+++-..+.   -..|-+.++.++| +|+||+|..
T Consensus       561 ~EkHsVSrLIGaPPGYVGyee---GG~LTEaVRr~PySViLlDEIEK  604 (786)
T COG0542         561 MEKHSVSRLIGAPPGYVGYEE---GGQLTEAVRRKPYSVILLDEIEK  604 (786)
T ss_pred             HHHHHHHHHhCCCCCCceecc---ccchhHhhhcCCCeEEEechhhh
Confidence            2 2223333332222211111   1235667778888 888899865

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.47  E-value=0.00098  Score=61.74  Aligned_cols=72  Identities=19%  Similarity=0.306  Sum_probs=42.4

Q ss_pred             CcccchHHH--HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCC-EEEEEEecCCCCHHHHHHHHH
Q 043249          155 RTIVGQESI--LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD-VVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       155 ~~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~-~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      +.++|-.+.  ...+.+....++ ...-+-|+|..|+|||+|++.+.+.. . +.+.. .+.|++.      .+++.++.
T Consensus       106 nFv~g~~n~~a~~~~~~~~~~~~-~~n~l~lyG~~G~GKTHLl~ai~~~l-~-~~~~~~~v~yi~~------~~f~~~~~  176 (440)
T PRK14088        106 NFVVGPGNSFAYHAALEVAKNPG-RYNPLFIYGGVGLGKTHLLQSIGNYV-V-QNEPDLRVMYITS------EKFLNDLV  176 (440)
T ss_pred             ccccCCchHHHHHHHHHHHhCcC-CCCeEEEEcCCCCcHHHHHHHHHHHH-H-HhCCCCeEEEEEH------HHHHHHHH
Confidence            345675433  233333333222 24458999999999999999999976 2 22333 3445443      35566666


Q ss_pred             HHhC
Q 043249          232 KRIG  235 (287)
Q Consensus       232 ~~~~  235 (287)
                      ..+.
T Consensus       177 ~~~~  180 (440)
T PRK14088        177 DSMK  180 (440)
T ss_pred             HHHh
Confidence            5553

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.45  E-value=0.00095  Score=65.80  Aligned_cols=46  Identities=26%  Similarity=0.405  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCce-EEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNG-IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~-vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.|.+++..+  ++. .+-++|..|+||||+|+.+.+..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~--rl~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQ--RLHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhC--CCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45899999999999988766  554 45799999999999999998865

>CHL00181 cbbX CbbX; Provisional

Probab=97.44  E-value=0.0015  Score=57.03  Aligned_cols=48  Identities=17%  Similarity=0.276  Sum_probs=32.5

Q ss_pred             CcccchHHHHHHHHHH---Hhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRC---ITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~---L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.+..+++|.++   +.-.          ......+.++|.+|+||||+|+.+....
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            3578887666655443   2211          1123457889999999999999997754

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.44  E-value=0.00087  Score=67.18  Aligned_cols=46  Identities=15%  Similarity=0.413  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++||+.+++++++.|...  ...-+-++|.+|+|||++++.+....
T Consensus       173 ~~~igr~~ei~~~~~~l~r~--~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRR--TKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999876  33344589999999999999988765

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.44  E-value=0.0004  Score=55.95  Aligned_cols=36  Identities=31%  Similarity=0.528  Sum_probs=28.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS  215 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv  215 (287)
                      ...+|.+.|+.|+||||+|+.++...   ..++...+++
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            55799999999999999999999877   3345444444

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.43  E-value=0.025  Score=50.34  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+.++|..|+|||+||..+.+..
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l  207 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL  207 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH
Confidence            668999999999999999999976

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

Probab=97.41  E-value=0.001  Score=60.74  Aligned_cols=48  Identities=25%  Similarity=0.264  Sum_probs=37.1

Q ss_pred             CcccchHHHHHHHHHHHhc----c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.+..+++|.+.+..    .       -...+-+.++|++|+|||+||+.+.+..
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            4578998888888776531    1       1245678899999999999999999865

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.41  E-value=0.0014  Score=61.11  Aligned_cols=46  Identities=20%  Similarity=0.328  Sum_probs=37.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+.....|...+..+  .+ +.+-++|++|+||||+|+.+.+..
T Consensus        14 ~divGq~~i~~~L~~~i~~~--~l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKN--SISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899988888887777655  44 557899999999999999998764

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.38  E-value=0.0015  Score=61.75  Aligned_cols=47  Identities=26%  Similarity=0.364  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+...+..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357999999999998887651 23457789999999999999998754

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.37  E-value=0.0024  Score=55.72  Aligned_cols=47  Identities=15%  Similarity=0.269  Sum_probs=31.1

Q ss_pred             cccchHHHHHHHHHH---Hhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRC---ITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~---L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.++.+++|.++   +..+          .....-+-++|.+|+||||+|+.+....
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            468887766665443   2111          0112357799999999999998876654

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.37  E-value=0.0012  Score=61.38  Aligned_cols=47  Identities=26%  Similarity=0.364  Sum_probs=31.4

Q ss_pred             cccchHH--HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQES--ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~--~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|..+  ....+..+....+....-+.|+|..|+|||+|++.+.+..
T Consensus       124 fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        124 FVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             cccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3556543  2333333333332234568899999999999999999976

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

Probab=97.36  E-value=0.00055  Score=65.18  Aligned_cols=53  Identities=26%  Similarity=0.462  Sum_probs=43.5

Q ss_pred             CCcccchHHHHHHHHHHHhc----cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCC
Q 043249          154 DRTIVGQESILDQVWRCITE----QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF  209 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F  209 (287)
                      +.+-+|.++.+++|+++|--    ..-+-+++..||++|+|||+|++.|....   ...|
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf  378 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF  378 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE
Confidence            34459999999999999852    33466899999999999999999999876   4455

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.36  E-value=0.00075  Score=62.45  Aligned_cols=46  Identities=17%  Similarity=0.374  Sum_probs=39.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..+..|..++..+  ++ +.+-++|+.|+||||+|+.+.+..
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~--ri~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSG--KIGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35799999999999888876  44 457899999999999999998865

>PRK06696 uridine kinase; Validated

Probab=97.36  E-value=0.00041  Score=58.24  Aligned_cols=44  Identities=14%  Similarity=0.267  Sum_probs=35.5

Q ss_pred             chHHHHHHHHHHHhc-cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          159 GQESILDQVWRCITE-QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~-~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|..-+++|.+.+.. ......+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            356667777777764 23478899999999999999999998866

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

Probab=97.36  E-value=0.00094  Score=57.45  Aligned_cols=100  Identities=16%  Similarity=0.256  Sum_probs=60.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCC-CEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF-DVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE---  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F-~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~---  247 (287)
                      +-.-++|+|..|+|||||++.+++..   +.+| +.++++.+.+... ..++.+++...-....    ....+....   
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            45677999999999999999999976   3344 4567777877654 3455565554311100    000111111   


Q ss_pred             ---HHHHHHHHHh--C-CCcEEEEEeCCCCcccccccc
Q 043249          248 ---ERASDITNTL--K-HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 ---~l~~~l~~~l--~-~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         ..+-.+.+++  + ++..||++||+..-...+..+
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~rei  182 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEV  182 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHHH
Confidence               1123356666  3 899999999997622334443

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.35  E-value=0.00097  Score=62.82  Aligned_cols=48  Identities=23%  Similarity=0.293  Sum_probs=33.7

Q ss_pred             CcccchHHHHHHHHHHH---hcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCI---TEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L---~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++++.+++   ...       ....+-+-++|++|+|||+||+.+.+..
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            35788887666555443   221       1233457899999999999999998865

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.34  E-value=0.0022  Score=58.82  Aligned_cols=48  Identities=25%  Similarity=0.370  Sum_probs=31.3

Q ss_pred             CcccchHHH--HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESI--LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.++.  ...+.++....+.....+.|+|..|+|||+|++.+++..
T Consensus       111 ~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l  160 (405)
T TIGR00362       111 NFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEI  160 (405)
T ss_pred             ccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            335675543  222333333322234568899999999999999999976

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).

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.33  E-value=0.0012  Score=61.39  Aligned_cols=100  Identities=19%  Similarity=0.183  Sum_probs=54.3

Q ss_pred             CcccchHHH--HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          155 RTIVGQESI--LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       155 ~~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      +.++|-.+.  ...+..+...++....-+-|+|..|+|||+|++.+.+.. .....--.++  +++    ...+...+..
T Consensus       116 nFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l-~~~~~~~~v~--yv~----~~~f~~~~~~  188 (450)
T PRK14087        116 NFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYI-ESNFSDLKVS--YMS----GDEFARKAVD  188 (450)
T ss_pred             cccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHH-HHhCCCCeEE--EEE----HHHHHHHHHH
Confidence            345675443  222333333232234567899999999999999999865 2111111222  332    3467777776


Q ss_pred             HhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          233 RIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .++...         .....+.+.++ +.-+|||||+-.
T Consensus       189 ~l~~~~---------~~~~~~~~~~~-~~dvLiIDDiq~  217 (450)
T PRK14087        189 ILQKTH---------KEIEQFKNEIC-QNDVLIIDDVQF  217 (450)
T ss_pred             HHHHhh---------hHHHHHHHHhc-cCCEEEEecccc
Confidence            664310         11223344443 344788899854

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.31  E-value=0.0012  Score=55.95  Aligned_cols=61  Identities=18%  Similarity=0.322  Sum_probs=37.5

Q ss_pred             CCcccchHH-HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          154 DRTIVGQES-ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       154 ~~~~vGr~~-~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      ++.++|-+. ....+-++....  ....+.|+|+.|+|||+|++.+.+.. .  ..-..+.+++++.
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~--~~~~l~l~Gp~G~GKThLl~a~~~~~-~--~~~~~v~y~~~~~   83 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQE--HSGYIYLWSREGAGRSHLLHAACAEL-S--QRGRAVGYVPLDK   83 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHH-H--hCCCeEEEEEHHH
Confidence            344557333 333333333323  44678899999999999999999876 2  2223455666654

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.31  E-value=0.0029  Score=49.52  Aligned_cols=40  Identities=28%  Similarity=0.346  Sum_probs=30.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN  222 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~  222 (287)
                      ++.|+|.+|+||||++..+....   ...-..++|+.....++
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcchH
Confidence            46799999999999999998865   22345677777765543

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.

>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=97.29  E-value=0.0022  Score=53.65  Aligned_cols=49  Identities=31%  Similarity=0.492  Sum_probs=31.9

Q ss_pred             CCcccchH-HHHHHHHHHHhcc-CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQE-SILDQVWRCITEQ-KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~-~~~~~l~~~L~~~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.++|-. ...-...+.+..+ +.....+-|+|..|+|||.|.+.+++..
T Consensus         8 dnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~   58 (219)
T PF00308_consen    8 DNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEA   58 (219)
T ss_dssp             CCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34556743 3333444444433 3345567899999999999999999976

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.

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

Probab=97.29  E-value=0.0017  Score=54.07  Aligned_cols=46  Identities=26%  Similarity=0.320  Sum_probs=38.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||-++.++.+--...++  +.+-+-|-||+|+||||-+..+.+..
T Consensus        27 ~dIVGNe~tv~rl~via~~g--nmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEG--NMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcC--CCCceEeeCCCCCchhhHHHHHHHHH
Confidence            46899999999887766666  78888899999999999888877654

>PRK07667 uridine kinase; Provisional

Probab=97.29  E-value=0.00043  Score=56.80  Aligned_cols=39  Identities=23%  Similarity=0.474  Sum_probs=32.1

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.|.+.+........+|+|-|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456667776655567899999999999999999998865

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.29  E-value=0.0022  Score=58.68  Aligned_cols=46  Identities=22%  Similarity=0.233  Sum_probs=38.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.|.+++..+  .+ ..+-++|+.|+||||+|+.+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~--~~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG--RVGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC--CcceeEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999888888766  44 447799999999999999987765

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.27  E-value=0.0024  Score=60.13  Aligned_cols=46  Identities=20%  Similarity=0.357  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||-+..++.|.+++..+  ++ ..+-++|+.|+||||+|+.+.+..
T Consensus        16 ~divGq~~v~~~L~~~~~~~--~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQ--YLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhC--CCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            35899999999999999766  44 456899999999999999988755

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.27  E-value=0.00039  Score=65.28  Aligned_cols=47  Identities=21%  Similarity=0.357  Sum_probs=40.6

Q ss_pred             cccchHHHHHHHHHHHhc----cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITE----QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++|.++.+++|++.|..    -+...+++.++|++|+||||||+.+.+-.
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            469999999999999943    24466899999999999999999998866

>PRK08233 hypothetical protein; Provisional

Probab=97.26  E-value=0.00082  Score=54.21  Aligned_cols=26  Identities=35%  Similarity=0.529  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          2 KTKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhC
Confidence            35799999999999999999998765

>cd01394 radB RadB

Probab=97.26  E-value=0.0037  Score=52.13  Aligned_cols=91  Identities=15%  Similarity=0.139  Sum_probs=52.6

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh----CCCCCCCCCCCHHHH--
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI----GFSTDSWQGKSFEER--  249 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~----~~~~~~~~~~~~~~l--  249 (287)
                      ..-.++.|.|.+|+||||++..+....   ..+-..++|++....+.  .-+++++...    ...-.-....+..++  
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGR   91 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHH
Confidence            356899999999999999999987654   22234567887665554  2333343321    100000112233333  


Q ss_pred             -HHHHHHHhCCCcEEEEEeCCCC
Q 043249          250 -ASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       250 -~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                       ...+...+..+.-++|+|-+-.
T Consensus        92 ~~~~~~~~~~~~~~lvvIDsi~~  114 (218)
T cd01394          92 AIQETETFADEKVDLVVVDSATA  114 (218)
T ss_pred             HHHHHHHHHhcCCcEEEEechHH
Confidence             2344555555566899999854

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

>CHL00176 ftsH cell division protein; Validated

Probab=97.25  E-value=0.0013  Score=63.40  Aligned_cols=94  Identities=20%  Similarity=0.209  Sum_probs=54.9

Q ss_pred             CcccchHHHHHHHHH---HHhccC-------CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWR---CITEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~---~L~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      .++.|.++.++++.+   .|...+       ...+-+.++|++|+|||+||+.+.+..   ..+     |+.++..    
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p-----~i~is~s----  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVP-----FFSISGS----  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC-----eeeccHH----
Confidence            457787765555544   443321       234568899999999999999998865   222     3343321    


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .+..    ...       ......+...+.....+.+++|+|||+..
T Consensus       251 ~f~~----~~~-------g~~~~~vr~lF~~A~~~~P~ILfIDEID~  286 (638)
T CHL00176        251 EFVE----MFV-------GVGAARVRDLFKKAKENSPCIVFIDEIDA  286 (638)
T ss_pred             HHHH----Hhh-------hhhHHHHHHHHHHHhcCCCcEEEEecchh
Confidence            1111    100       01122333445555567889999999953

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.25  E-value=0.00043  Score=61.65  Aligned_cols=46  Identities=22%  Similarity=0.423  Sum_probs=39.2

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+.+++..+  ..+.+-++|++|+||||+|+.+.+..
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999888766  55567899999999999999998865

>TIGR00959 ffh signal recognition particle protein

Probab=97.24  E-value=0.0038  Score=57.36  Aligned_cols=26  Identities=27%  Similarity=0.349  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.++.++|.+|+||||.+..+....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999987776553

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.23  E-value=0.0047  Score=60.11  Aligned_cols=102  Identities=22%  Similarity=0.222  Sum_probs=68.9

Q ss_pred             HHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC-CCCHHHHHHHHHHHhCCCCCCC--
Q 043249          165 DQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR-EPNLMQIQEDIGKRIGFSTDSW--  241 (287)
Q Consensus       165 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~i~~~~~~~~~~~--  241 (287)
                      .++.+.|... .+.+.+-|.-+.|.|||||+-......    ..=..+.|.+++. +.++..+.+-++..++.-.+..  
T Consensus        25 ~rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~   99 (894)
T COG2909          25 PRLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGD   99 (894)
T ss_pred             HHHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccH
Confidence            3455555443 277899999999999999999887532    2334689999866 5678889999998887422111  


Q ss_pred             ---------CCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          242 ---------QGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       242 ---------~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                               ...+...+.+.+...|.  .++..|||||-.-
T Consensus       100 ~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHl  140 (894)
T COG2909         100 EAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHL  140 (894)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccc
Confidence                     12233344455555444  5689999999643

>PRK03839 putative kinase; Provisional

Probab=97.22  E-value=0.0016  Score=52.68  Aligned_cols=23  Identities=43%  Similarity=0.684  Sum_probs=21.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|++|+||||+++.+.+..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999876

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.21  E-value=0.0044  Score=54.94  Aligned_cols=94  Identities=15%  Similarity=0.198  Sum_probs=59.2

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCC----CCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC-------CCCC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHD----FDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS-------WQGK  244 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~----F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~-------~~~~  244 (287)
                      ....++-|+|.+|+|||+++..+.-.. .....    =...+|++....|++..+.+ ++++++.....       ....
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~  177 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAY  177 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCC
Confidence            367899999999999999999987543 11111    14789999999888887654 44555432110       0111


Q ss_pred             CH---HHHHHHHHHHhCC--CcEEEEEeCCCC
Q 043249          245 SF---EERASDITNTLKH--KKFVLLSDDIWE  271 (287)
Q Consensus       245 ~~---~~l~~~l~~~l~~--kr~LlVLDDvw~  271 (287)
                      +.   ..+...+...+..  +-=|||+|-+-.
T Consensus       178 ~~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa  209 (317)
T PRK04301        178 NSDHQMLLAEKAEELIKEGENIKLVIVDSLTA  209 (317)
T ss_pred             CHHHHHHHHHHHHHHHhccCceeEEEEECchH
Confidence            11   2334455565653  344999999864

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

Probab=97.21  E-value=0.00096  Score=59.47  Aligned_cols=27  Identities=33%  Similarity=0.423  Sum_probs=24.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+..++|||++|+|||.+|+++++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            367899999999999999999999976

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

Probab=97.20  E-value=0.00052  Score=58.56  Aligned_cols=48  Identities=29%  Similarity=0.454  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhc---cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE---QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++-++++-=.+..   .+..+-.+-++|++|+||||||..+.+..
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            4579999888887655543   35578899999999999999999999976

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.20  E-value=0.003  Score=60.57  Aligned_cols=47  Identities=19%  Similarity=0.320  Sum_probs=39.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+...+.|.+++..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999988662 24677899999999999999997754

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.19  E-value=0.0018  Score=60.85  Aligned_cols=47  Identities=26%  Similarity=0.347  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..+..+...+..+. -.+-+-++|+.|+||||+|+.+.+..
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            357999999998888776551 23567899999999999999998865

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.18  E-value=0.0043  Score=54.66  Aligned_cols=92  Identities=22%  Similarity=0.268  Sum_probs=55.3

Q ss_pred             chHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCC
Q 043249          159 GQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGF  236 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~  236 (287)
                      ++........+++..-  ....+-+-++|..|+|||.||.++.+.. - ...+. +.+++++      .++.++-.....
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l-~-~~g~~-v~~~~~~------~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANEL-A-KKGVS-STLLHFP------EFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHH-H-HcCCC-EEEEEHH------HHHHHHHHHHhc
Confidence            4444455555555432  1234568899999999999999999987 2 33343 3455543      566666554432


Q ss_pred             CCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          237 STDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       237 ~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                             .+....   +. .+. +-=||||||+-.
T Consensus       206 -------~~~~~~---l~-~l~-~~dlLiIDDiG~  228 (306)
T PRK08939        206 -------GSVKEK---ID-AVK-EAPVLMLDDIGA  228 (306)
T ss_pred             -------CcHHHH---HH-Hhc-CCCEEEEecCCC
Confidence                   122222   22 233 566899999965

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.17  E-value=0.00092  Score=64.23  Aligned_cols=48  Identities=19%  Similarity=0.329  Sum_probs=39.2

Q ss_pred             CcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|-+..++++..+|...   .....++.|+|++|+||||+++.+....
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            45789999999999888753   1234679999999999999999998765

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

>PRK10867 signal recognition particle protein; Provisional

Probab=97.13  E-value=0.0056  Score=56.35  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+|.++|.+|+||||.+..+....
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999777765543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.12  E-value=0.002  Score=56.82  Aligned_cols=88  Identities=16%  Similarity=0.182  Sum_probs=57.0

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|.+|+||||||..+....   ...-..++|+...+.++..     .+++++.....   ....+.++....
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~  124 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEI  124 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence            356899999999999999998876654   2234567788877766653     34455432110   112244555555


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ +.--+||+|-|-.
T Consensus       125 ~~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       125 AETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHHhhccCCcEEEEcchhh
Confidence            555554 4667899999864

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.12  E-value=0.0046  Score=53.88  Aligned_cols=85  Identities=22%  Similarity=0.315  Sum_probs=46.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc-CCCCEEEEEEecCCCC--HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE-HDFDVVIWSVVSREPN--LMQIQEDIGKRIGFSTDSWQGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~-~~F~~~~wv~vs~~~~--~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l  253 (287)
                      +..++.++|.+|+||||++..+.... ..+ ..+ .+..|+.. .+.  ...-+..-...++.+..  ...+...+...+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~-~~~~g~~-~V~li~~D-~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l  267 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF-VLEHGNK-KVALITTD-TYRIGAVEQLKTYAKILGVPVK--VARDPKELRKAL  267 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHHcCCC-eEEEEECC-ccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHH
Confidence            46799999999999999999987765 322 223 33444432 221  22223333333343211  123444555445


Q ss_pred             HHHhCCCcEEEEEeC
Q 043249          254 TNTLKHKKFVLLSDD  268 (287)
Q Consensus       254 ~~~l~~kr~LlVLDD  268 (287)
                      ... .+ .=+|++|.
T Consensus       268 ~~~-~~-~d~vliDt  280 (282)
T TIGR03499       268 DRL-RD-KDLILIDT  280 (282)
T ss_pred             HHc-cC-CCEEEEeC
Confidence            443 33 34677775

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.10  E-value=0.0045  Score=60.14  Aligned_cols=47  Identities=23%  Similarity=0.375  Sum_probs=38.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.+..++.|.+++..+. -.+.+-++|..|+||||+|+.+.+..
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999987662 23455799999999999999887755

>PRK04296 thymidine kinase; Provisional

Probab=97.10  E-value=0.0011  Score=54.14  Aligned_cols=86  Identities=20%  Similarity=0.066  Sum_probs=47.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK  258 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~  258 (287)
                      .++-|+|..|.||||++....... .  .+-..+..+.  ..++.......++++++............++...+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~-~--~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY-E--ERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH-H--HcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            467889999999999998887765 2  2222233231  2222222244456666542211112334445555555 23


Q ss_pred             CCcEEEEEeCCC
Q 043249          259 HKKFVLLSDDIW  270 (287)
Q Consensus       259 ~kr~LlVLDDvw  270 (287)
                      ++.=+||+|.+-
T Consensus        77 ~~~dvviIDEaq   88 (190)
T PRK04296         77 EKIDCVLIDEAQ   88 (190)
T ss_pred             CCCCEEEEEccc
Confidence            344589999984

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

Probab=97.09  E-value=0.0015  Score=60.20  Aligned_cols=47  Identities=32%  Similarity=0.348  Sum_probs=36.2

Q ss_pred             cccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.|.+..+++|.+.+.-.           -....-+.++|++|+|||++|+.+.+..
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            4678998888887766321           1234567899999999999999999965

>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=97.09  E-value=0.0034  Score=50.37  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.++|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999988765

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.08  E-value=0.0071  Score=55.78  Aligned_cols=56  Identities=21%  Similarity=0.302  Sum_probs=35.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC--HHHHHHHHHHHhCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN--LMQIQEDIGKRIGF  236 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~--~~~i~~~i~~~~~~  236 (287)
                      .+.+|.++|.+|+||||++..+.... .. ..+. +.-|+.. .+.  ...-++.+..+++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L-~~-~g~k-V~lV~~D-~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF-KK-KGLK-VGLVAAD-TYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-HH-cCCe-EEEecCC-CCCHHHHHHHHHHHHHcCC
Confidence            57899999999999999999998776 32 2332 2223322 222  23445556666554

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.0037  Score=59.99  Aligned_cols=47  Identities=26%  Similarity=0.432  Sum_probs=38.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++||-+..++.|.+++..+. -.+.+-++|..|+||||+|+.+.+..
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999998887761 33566899999999999999996654

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.08  E-value=0.0006  Score=56.59  Aligned_cols=26  Identities=35%  Similarity=0.516  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|.|.+|+|||||++.+....
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            67899999999999999999998865

>PRK06762 hypothetical protein; Provisional

Probab=97.07  E-value=0.0042  Score=49.43  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

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

Probab=97.06  E-value=0.003  Score=54.09  Aligned_cols=75  Identities=23%  Similarity=0.287  Sum_probs=46.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      ...-+.++|.+|+|||.||.++.+.. - +..+.+ .+++      ..+++.++......      ....    ..|.+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l-~-~~g~sv-~f~~------~~el~~~Lk~~~~~------~~~~----~~l~~~  164 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNEL-L-KAGISV-LFIT------APDLLSKLKAAFDE------GRLE----EKLLRE  164 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHH-H-HcCCeE-EEEE------HHHHHHHHHHHHhc------CchH----HHHHHH
Confidence            55677899999999999999999987 3 333433 3443      44566666655432      1111    223332


Q ss_pred             hCCCcEEEEEeCCCC
Q 043249          257 LKHKKFVLLSDDIWE  271 (287)
Q Consensus       257 l~~kr~LlVLDDvw~  271 (287)
                      +. +-=||||||+-.
T Consensus       165 l~-~~dlLIiDDlG~  178 (254)
T COG1484         165 LK-KVDLLIIDDIGY  178 (254)
T ss_pred             hh-cCCEEEEecccC
Confidence            22 334889999866

>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=97.06  E-value=0.0043  Score=51.01  Aligned_cols=37  Identities=24%  Similarity=0.325  Sum_probs=25.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV  217 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v  217 (287)
                      ++||.+||+.|+||||.+-.+.... ..+  -..+..++.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~   37 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISA   37 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecC
Confidence            4799999999999999888877665 322  223445553

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 ....

>cd00983 recA 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=0.0024  Score=56.37  Aligned_cols=88  Identities=18%  Similarity=0.179  Sum_probs=57.2

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|++|+||||||-.+.-..   ...-..++|+.....+++.     .+++++.....   ....+.++....
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i  124 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEI  124 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHH
Confidence            356789999999999999999976654   2334567899887777653     34444432110   112244555555


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ +.--+||+|-|-.
T Consensus       125 ~~~li~s~~~~lIVIDSvaa  144 (325)
T cd00983         125 ADSLVRSGAVDLIVVDSVAA  144 (325)
T ss_pred             HHHHHhccCCCEEEEcchHh
Confidence            655554 4567899999864

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.05  E-value=0.0025  Score=62.97  Aligned_cols=47  Identities=28%  Similarity=0.305  Sum_probs=36.5

Q ss_pred             cccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.|.+..++.+.+++...           -...+-+.++|.+|+||||||+.+.+..
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            4779999888887776421           0234567899999999999999998865

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.05  E-value=0.011  Score=49.90  Aligned_cols=27  Identities=30%  Similarity=0.509  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+++|.|..|.|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            478899999999999999999998765

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.04  E-value=0.0048  Score=59.08  Aligned_cols=46  Identities=28%  Similarity=0.427  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||.+..++.|.+++..+  ++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ddVIGQe~vv~~L~~al~~g--RLpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQ--RLHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhC--CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            35899999999999998766  44 456889999999999999998765

>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=97.04  E-value=0.00058  Score=51.57  Aligned_cols=21  Identities=43%  Similarity=0.797  Sum_probs=19.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.|.|..|+||||+|+.+...
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            689999999999999999876

...

>PRK06547 hypothetical protein; Provisional

Probab=97.04  E-value=0.0012  Score=53.16  Aligned_cols=34  Identities=21%  Similarity=0.170  Sum_probs=27.0

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +...+...  ...+|+|.|..|+||||+|+.+....
T Consensus         6 ~~~~~~~~--~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          6 IAARLCGG--GMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHhhcC--CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            33344433  78899999999999999999998764

>TIGR00235 udk uridine kinase

Probab=97.02  E-value=0.00064  Score=56.36  Aligned_cols=26  Identities=35%  Similarity=0.566  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|..|+|||||++.+....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56899999999999999999998865

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

>PRK09354 recA recombinase A; Provisional

Probab=97.02  E-value=0.0029  Score=56.34  Aligned_cols=88  Identities=16%  Similarity=0.176  Sum_probs=58.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|++|+|||||+-.+....   ...-..++|+.....+++.     .+++++.....   ....+.++....
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i  129 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEI  129 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence            356799999999999999999987654   2344678899888877763     34555432110   112244555555


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ ++--+||+|-|-.
T Consensus       130 ~~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        130 ADTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHHhhcCCCCEEEEeChhh
Confidence            655554 4667899999864

>PRK08181 transposase; Validated

Probab=97.01  E-value=0.0031  Score=54.41  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+.++|.+|+|||.||..+.+..
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a  130 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLAL  130 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH
Confidence            458899999999999999998865

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

Probab=97.00  E-value=0.0022  Score=51.91  Aligned_cols=73  Identities=25%  Similarity=0.365  Sum_probs=42.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTL  257 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l  257 (287)
                      ..-+.++|..|+|||.||..+.+...  ...+. +.|+.      ..+++..+-..-       .........    +.+
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~--~~g~~-v~f~~------~~~L~~~l~~~~-------~~~~~~~~~----~~l  106 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAI--RKGYS-VLFIT------ASDLLDELKQSR-------SDGSYEELL----KRL  106 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHH--HTT---EEEEE------HHHHHHHHHCCH-------CCTTHCHHH----HHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhc--cCCcc-eeEee------cCceeccccccc-------cccchhhhc----Ccc
Confidence            45688999999999999999988762  23333 34554      345555543221       111222222    223


Q ss_pred             CCCcEEEEEeCCCC
Q 043249          258 KHKKFVLLSDDIWE  271 (287)
Q Consensus       258 ~~kr~LlVLDDvw~  271 (287)
                      . +-=||||||+-.
T Consensus       107 ~-~~dlLilDDlG~  119 (178)
T PF01695_consen  107 K-RVDLLILDDLGY  119 (178)
T ss_dssp             H-TSSCEEEETCTS
T ss_pred             c-cccEecccccce
Confidence            3 345788999976

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.

>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=96.98  E-value=0.0042  Score=49.71  Aligned_cols=72  Identities=11%  Similarity=0.141  Sum_probs=43.1

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      ++|.+..+.++++.+..-.....-|-|+|..|+||+.+|+.+++..   ...-.+.+-|+.+ .++.+.+-.+++-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s---~r~~~pfi~vnc~-~~~~~~~e~~LFG   72 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS---PRKNGPFISVNCA-ALPEELLESELFG   72 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS---TTTTS-EEEEETT-TS-HHHHHHHHHE
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh---hcccCCeEEEehh-hhhcchhhhhhhc
Confidence            4677778888887776532234566699999999999999999954   2222233334444 3344444445543

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 ....

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.98  E-value=0.0088  Score=50.51  Aligned_cols=89  Identities=15%  Similarity=0.141  Sum_probs=56.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC----------------
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD----------------  239 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~----------------  239 (287)
                      ...+++.|+|.+|+|||||+..+....  .+ +=..++|++..+.  +..+.+.+ .+++..-.                
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~--~~-~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~   96 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYGA--LK-QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTE   96 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHHH--Hh-CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccc
Confidence            467899999999999999999985432  12 2346788888654  55666653 33332110                


Q ss_pred             --CCCCCCHHHHHHHHHHHhCC-CcEEEEEeCCC
Q 043249          240 --SWQGKSFEERASDITNTLKH-KKFVLLSDDIW  270 (287)
Q Consensus       240 --~~~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw  270 (287)
                        .....+.+.+...+.+.+.. +.=++|+|.+-
T Consensus        97 ~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         97 GFEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              01123345666777777763 55589999876

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

Probab=96.98  E-value=0.00067  Score=55.65  Aligned_cols=82  Identities=20%  Similarity=0.201  Sum_probs=45.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCE---EEEEEecCCCCHHHHHHHHHHHhCC--CCCCCCCCCHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV---VIWSVVSREPNLMQIQEDIGKRIGF--STDSWQGKSFEERASDIT  254 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~---~~wv~vs~~~~~~~i~~~i~~~~~~--~~~~~~~~~~~~l~~~l~  254 (287)
                      ||+|.|.+|+||||+|+.+.... . +..+.+   ...++...-+........ -.....  .-......+.+.+.+.|.
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L-~-~~~~~~~~~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~~p~a~d~~~l~~~l~   77 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL-N-KRGIPAMEMDIILSLDDFYDDYHLRDR-KGRGENRYNFDHPDAFDFDLLKEDLK   77 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH-T-TCTTTCCCSEEEEEGGGGBHHHHHHHH-HHHCTTTSSTTSGGGBSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-C-ccCcCccceeEEEeecccccccchhhH-hhccccccCCCCccccCHHHHHHHHH
Confidence            79999999999999999999877 3 223331   223332222222222221 111111  011223557777888887


Q ss_pred             HHhCCCcEEE
Q 043249          255 NTLKHKKFVL  264 (287)
Q Consensus       255 ~~l~~kr~Ll  264 (287)
                      ...+++..-+
T Consensus        78 ~L~~g~~i~~   87 (194)
T PF00485_consen   78 ALKNGGSIEI   87 (194)
T ss_dssp             HHHTTSCEEE
T ss_pred             HHhCCCcccc
Confidence            7766665444

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 ....

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.98  E-value=0.0055  Score=59.05  Aligned_cols=46  Identities=24%  Similarity=0.356  Sum_probs=38.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||.+..++.|.+.+..+  ++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ~divGQe~vv~~L~~~l~~~--rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLG--RLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            45899999999999888766  44 446799999999999999997765

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.97  E-value=0.0033  Score=52.05  Aligned_cols=26  Identities=38%  Similarity=0.577  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.-+|+|-|.+|+||||+|+.++...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999999977

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.0076  Score=54.53  Aligned_cols=47  Identities=26%  Similarity=0.391  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+...+.+.+.+..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357999999999999887651 34578899999999999999997754

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.96  E-value=0.011  Score=52.78  Aligned_cols=99  Identities=11%  Similarity=0.134  Sum_probs=61.7

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=....++-|+|.+|+|||+|+..+.-.. ...    ..-..++|++....|+++++. +|+++++.....      
T Consensus       116 L~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~-~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~~~~l~~i~  193 (342)
T PLN03186        116 LEGGIETGSITEIYGEFRTGKTQLCHTLCVTC-QLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNGADVLENVA  193 (342)
T ss_pred             hcCCCcCceEEEEECCCCCCccHHHHHHHHHh-hcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCChhhhccceE
Confidence            43333456888999999999999998776432 111    112378999999999998864 556666542211      


Q ss_pred             -CCCCCHHHHHHHHH---HHh-CCCcEEEEEeCCCC
Q 043249          241 -WQGKSFEERASDIT---NTL-KHKKFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~~l~~~l~---~~l-~~kr~LlVLDDvw~  271 (287)
                       ....+.+++...+.   ..+ ..+--|||+|-+-.
T Consensus       194 ~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        194 YARAYNTDHQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             EEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence             01234444433332   223 35667899999854

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.96  E-value=0.0077  Score=57.11  Aligned_cols=46  Identities=26%  Similarity=0.413  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+.+++..+  ++ +.+-++|..|+||||+|+.+....
T Consensus        16 ~divGq~~v~~~L~~~i~~~--~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQ--RLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999988866  44 456799999999999999997654

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.96  E-value=0.0023  Score=61.64  Aligned_cols=47  Identities=26%  Similarity=0.432  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++..+. -.+.+-++|..|+||||+|+.+.+..
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            358999999999999988661 23567899999999999999987754

>PTZ00301 uridine kinase; Provisional

Probab=96.95  E-value=0.0012  Score=54.76  Aligned_cols=26  Identities=27%  Similarity=0.544  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|-|.+|+||||||+.+.+..
T Consensus         2 ~~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          2 PCTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CCEEEEEECCCcCCHHHHHHHHHHHH
Confidence            45799999999999999999987754

>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=96.95  E-value=0.007  Score=50.71  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=21.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|..|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998866

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

>PRK06526 transposase; Provisional

Probab=96.94  E-value=0.0031  Score=54.00  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..-+.++|++|+|||+||..+.+..
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH
Confidence            3457899999999999999998865

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.002  Score=59.61  Aligned_cols=46  Identities=24%  Similarity=0.315  Sum_probs=36.4

Q ss_pred             ccchH---HHHHHHHHHHhccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQE---SILDQVWRCITEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~---~~~~~l~~~L~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-|.|   .++++|+++|.++.       +=++=|-++|++|.|||-||++|....
T Consensus       306 VkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  306 VKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             ccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            45665   57788899998752       235667899999999999999998865

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.93  E-value=0.015  Score=51.30  Aligned_cols=99  Identities=16%  Similarity=0.143  Sum_probs=61.5

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=..-+++-|+|.+|+|||+|+..+.-.. ...    ..=...+|++....|+++++.+ ++++++.....      
T Consensus        89 LgGGi~~G~iteI~G~~GsGKTql~lqla~~~-~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~  166 (313)
T TIGR02238        89 LGGGIESMSITEVFGEFRCGKTQLSHTLCVTA-QLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNIL  166 (313)
T ss_pred             hCCCCcCCeEEEEECCCCCCcCHHHHHHHHHH-hcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEE
Confidence            44333466899999999999999998764322 111    1124689999999999998765 56666542111      


Q ss_pred             -CCCCCHHHHH---HHHHHHhC-CCcEEEEEeCCCC
Q 043249          241 -WQGKSFEERA---SDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~~l~---~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                       ....+.+++.   ..+...+. ++-=|||+|-+-.
T Consensus       167 ~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSisa  202 (313)
T TIGR02238       167 YARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMA  202 (313)
T ss_pred             EecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcchH
Confidence             0112333333   33333443 4556899999865

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.93  E-value=0.0095  Score=57.36  Aligned_cols=46  Identities=22%  Similarity=0.252  Sum_probs=38.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.|.+++..+  .+ .-+-++|+.|+||||+|+.+.+..
T Consensus        16 ~eivGQe~i~~~L~~~i~~~--ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMD--RVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999998888765  44 448899999999999999987755

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.93  E-value=0.0014  Score=51.36  Aligned_cols=25  Identities=36%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..-|.|.||+|+|||||++.+.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            4568999999999999999999877

>PHA00729 NTP-binding motif containing protein

Probab=96.92  E-value=0.0016  Score=54.33  Aligned_cols=35  Identities=20%  Similarity=0.247  Sum_probs=27.4

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++.+...  ....|.|.|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~--~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNN--GFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcC--CeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555555  45678899999999999999998864

>PRK09183 transposase/IS protein; Provisional

Probab=96.92  E-value=0.0042  Score=53.38  Aligned_cols=25  Identities=36%  Similarity=0.420  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+.|+|.+|+|||+||..+.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3567799999999999999997764

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.91  E-value=0.0024  Score=55.18  Aligned_cols=23  Identities=35%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|.+|+||||+|+.+....
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            57899999999999999999876

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.90  E-value=0.0093  Score=50.53  Aligned_cols=95  Identities=12%  Similarity=0.171  Sum_probs=58.1

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC------------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST------------  238 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~------------  238 (287)
                      |..+=...+++.|.|.+|+|||++|..+....   -..-+..+||+...  ++..+.+.+. +++..-            
T Consensus        14 l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~   87 (237)
T TIGR03877        14 LHGGIPERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIV   87 (237)
T ss_pred             hcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEE
Confidence            43333466899999999999999998864432   12345778888765  4666666543 222110            


Q ss_pred             -------------CC---CCCCCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          239 -------------DS---WQGKSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       239 -------------~~---~~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                                   ..   ....+..++...+.+.+.. +.=++|+|.+-.
T Consensus        88 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~  137 (237)
T TIGR03877        88 DAFTGGIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT  137 (237)
T ss_pred             eccccccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence                         00   0123566677777776642 344699998754

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.90  E-value=0.0085  Score=52.92  Aligned_cols=99  Identities=13%  Similarity=0.128  Sum_probs=60.0

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=....++-|+|.+|+||||++..+.-.. ....    .=...+||+....|+...+.+ +++.++.....      
T Consensus        88 l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~-~~~~~gl~~~~~~~~i~  165 (310)
T TIGR02236        88 LGGGIETQAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQ-MAEARGLDPDEVLKNIY  165 (310)
T ss_pred             hcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhhceE
Confidence            43332357899999999999999999986653 1110    112789999999898887654 45554432100      


Q ss_pred             -CCCCCHH---HHHHHHHHHhCCC---cEEEEEeCCCC
Q 043249          241 -WQGKSFE---ERASDITNTLKHK---KFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~---~l~~~l~~~l~~k---r~LlVLDDvw~  271 (287)
                       ....+.+   .+...+.+.+...   --+||+|-+-.
T Consensus       166 i~~~~~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       166 VARAYNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             EEecCCHHHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence             0011111   2334455555432   34999999865

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.

>PRK06921 hypothetical protein; Provisional

Probab=96.90  E-value=0.0079  Score=51.90  Aligned_cols=39  Identities=28%  Similarity=0.341  Sum_probs=28.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV  217 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v  217 (287)
                      ...-+.++|..|+|||+||.++.+.. . +.+-..+++++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l-~-~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL-M-RKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH-h-hhcCceEEEEEH
Confidence            35678899999999999999999976 2 221234455554

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

Probab=96.89  E-value=0.0017  Score=50.20  Aligned_cols=72  Identities=14%  Similarity=0.105  Sum_probs=43.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      ..+-|-|.|.+|+|||||+..+....     .|   -|+++|+-.-...+...-=+     .-.....+.+.+.+.|...
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~-----~~---~~i~isd~vkEn~l~~gyDE-----~y~c~i~DEdkv~D~Le~~   72 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT-----GL---EYIEISDLVKENNLYEGYDE-----EYKCHILDEDKVLDELEPL   72 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh-----CC---ceEehhhHHhhhcchhcccc-----cccCccccHHHHHHHHHHH
Confidence            34567899999999999999998654     22   46777653222222211111     0112345777788888777


Q ss_pred             hCCCc
Q 043249          257 LKHKK  261 (287)
Q Consensus       257 l~~kr  261 (287)
                      +.+.-
T Consensus        73 m~~Gg   77 (176)
T KOG3347|consen   73 MIEGG   77 (176)
T ss_pred             HhcCC
Confidence            66543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.89  E-value=0.0096  Score=59.83  Aligned_cols=49  Identities=27%  Similarity=0.427  Sum_probs=39.5

Q ss_pred             CCcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+.+.+...       .....++.++|+.|+|||++|+.+....
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            456899999999998888642       1224678899999999999999998865

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.

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

Probab=96.89  E-value=0.008  Score=59.41  Aligned_cols=49  Identities=31%  Similarity=0.457  Sum_probs=38.5

Q ss_pred             CCcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+.+.+...       +....++.++|+.|+|||+||+.+....
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            356789999999888887632       2234578899999999999999998865

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.89  E-value=0.002  Score=54.08  Aligned_cols=46  Identities=20%  Similarity=0.328  Sum_probs=30.4

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.++.....+..+.........+.|+|..|+|||+||+.+++..
T Consensus        21 ~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         21 VAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             ccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3455444333333332222245678899999999999999999875

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

Probab=96.89  E-value=0.001  Score=51.42  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|-++|++|+||||+|+.+....
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            57899999999999999998765

...

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.89  E-value=0.011  Score=51.45  Aligned_cols=27  Identities=26%  Similarity=0.300  Sum_probs=23.0

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+.+|+|.|..|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            367899999999999999998875544

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.88  E-value=0.0098  Score=52.64  Aligned_cols=99  Identities=11%  Similarity=0.120  Sum_probs=60.1

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhccc----cCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSE----EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v----~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=....++-|+|.+|+|||||+..+.... ..    ...-..++|++....|+..++ ..++++++.....      
T Consensus        89 l~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~-~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~  166 (316)
T TIGR02239        89 LGGGIETGSITEIFGEFRTGKTQLCHTLAVTC-QLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVA  166 (316)
T ss_pred             hcCCCCCCeEEEEECCCCCCcCHHHHHHHHHH-hhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEE
Confidence            44333467899999999999999999876532 11    112236789998888888874 4455555442111      


Q ss_pred             -CCCCCHHHHHHHH---HHHhC-CCcEEEEEeCCCC
Q 043249          241 -WQGKSFEERASDI---TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~~l~~~l---~~~l~-~kr~LlVLDDvw~  271 (287)
                       ....+.+++...+   ...+. .+--|||+|-+-.
T Consensus       167 ~~~~~~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~a  202 (316)
T TIGR02239       167 YARAYNTDHQLQLLQQAAAMMSESRFALLIVDSATA  202 (316)
T ss_pred             EEecCChHHHHHHHHHHHHhhccCCccEEEEECcHH
Confidence             0112334433333   33343 4566899999864

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.86  E-value=0.0015  Score=53.81  Aligned_cols=83  Identities=16%  Similarity=0.196  Sum_probs=44.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHH---HHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQE---DIGKRIGFSTDSWQGKSFEERASDITN  255 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~---~i~~~~~~~~~~~~~~~~~~l~~~l~~  255 (287)
                      .+|.|+|..|+||||++..+....   ..+...++++. ..+.  +....   .++.+-..      ..+.....+.++.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t~-e~~~--E~~~~~~~~~i~q~~v------g~~~~~~~~~i~~   69 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILTI-EDPI--EFVHESKRSLINQREV------GLDTLSFENALKA   69 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEEE-cCCc--cccccCccceeeeccc------CCCccCHHHHHHH
Confidence            478999999999999999877654   22333343332 1111  10000   11111000      1111234455677


Q ss_pred             HhCCCcEEEEEeCCCCccc
Q 043249          256 TLKHKKFVLLSDDIWESEI  274 (287)
Q Consensus       256 ~l~~kr~LlVLDDvw~~~~  274 (287)
                      .|+...=+|++|++.+ .+
T Consensus        70 aLr~~pd~ii~gEird-~e   87 (198)
T cd01131          70 ALRQDPDVILVGEMRD-LE   87 (198)
T ss_pred             HhcCCcCEEEEcCCCC-HH
Confidence            7776666888888877 44

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.85  E-value=0.0044  Score=57.46  Aligned_cols=25  Identities=32%  Similarity=0.438  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..-+.|+|..|+|||+|++.+.+..
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l  165 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHAL  165 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999999976

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.85  E-value=0.0019  Score=59.73  Aligned_cols=44  Identities=14%  Similarity=0.207  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|+++.++.+...+..+    ..+-|.|.+|+|||+||+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHh
Confidence            45799999999998888765    567799999999999999998865

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.85  E-value=0.0094  Score=59.81  Aligned_cols=49  Identities=27%  Similarity=0.433  Sum_probs=38.4

Q ss_pred             CCcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+.+.+...       +....++.++|+.|+|||+||+.+.+..
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            456889999988888877531       2223578899999999999999998765

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.84  E-value=0.0026  Score=49.89  Aligned_cols=44  Identities=23%  Similarity=0.471  Sum_probs=34.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCC
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS  237 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~  237 (287)
                      +|.|-|.+|+||||+|+.+.++. .    ..+         .+...++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~-g----l~~---------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL-G----LKL---------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh-C----Cce---------eeccHHHHHHHHHcCCC
Confidence            68999999999999999998876 1    111         13457899999987763

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

Probab=96.84  E-value=0.011  Score=51.06  Aligned_cols=92  Identities=17%  Similarity=0.097  Sum_probs=61.2

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhC---CCCCCCCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG---FSTDSWQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~---~~~~~~~~~~~~~l~~~  252 (287)
                      ..-.++=|+|+.|.||||+|-+++-..   +..-..++|+..-..++++.+..--...+.   ... ..+.....+.+..
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~-~~~~e~q~~i~~~  133 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQ-PDTGEQQLEIAEK  133 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEec-CCCHHHHHHHHHH
Confidence            467899999999999999999987654   455558899999999998876543332121   111 1112222334445


Q ss_pred             HHHHhCCCcEEEEEeCCCC
Q 043249          253 ITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~~kr~LlVLDDvw~  271 (287)
                      +......+--|+|+|-|-.
T Consensus       134 ~~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         134 LARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHHhccCCCCEEEEecCcc
Confidence            5555555578999998865

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.82  E-value=0.0023  Score=57.84  Aligned_cols=47  Identities=26%  Similarity=0.410  Sum_probs=39.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+.+.+..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            468999999999988887651 34567899999999999999998765

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.82  E-value=0.021  Score=51.05  Aligned_cols=99  Identities=15%  Similarity=0.141  Sum_probs=61.5

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhccc----cCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSE----EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v----~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=..-+++=|+|.+|+|||+|+-.+.-.. ..    ...-...+|++....|+++++.+ ++++++.....      
T Consensus       119 LgGGi~~G~ItEI~G~~GsGKTql~lqlav~~-qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~  196 (344)
T PLN03187        119 LGGGIETRCITEAFGEFRSGKTQLAHTLCVTT-QLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNII  196 (344)
T ss_pred             cCCCCCCCeEEEEecCCCCChhHHHHHHHHHH-hcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEE
Confidence            43332456888999999999999998774322 11    11124689999999999998765 56666553211      


Q ss_pred             -CCCCCHHHHHHH---HHHHhC-CCcEEEEEeCCCC
Q 043249          241 -WQGKSFEERASD---ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~~l~~~---l~~~l~-~kr~LlVLDDvw~  271 (287)
                       ....+.+++...   +...+. .+--|||+|-+-.
T Consensus       197 ~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSita  232 (344)
T PLN03187        197 YARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIA  232 (344)
T ss_pred             EecCCCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHH
Confidence             112344443333   333332 4456899999864

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.026  Score=54.58  Aligned_cols=94  Identities=21%  Similarity=0.240  Sum_probs=62.1

Q ss_pred             CcccchHHHHHHHHHHHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWRCITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      +++=|.++.+.+|.+-+.-          +-.+.+=|-.||++|.|||-|||+|....        ...|++|-..    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc--------sL~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC--------SLNFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc--------eeeEEeecCH----
Confidence            5666889888888775432          12346678899999999999999998865        2345666543    


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      +++..   .+|        .+++-+.+...+.=.-+.|.|.+|++.+
T Consensus       740 ELLNM---YVG--------qSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 ELLNM---YVG--------QSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             HHHHH---Hhc--------chHHHHHHHHHHhhccCCeEEEeccccc
Confidence            22221   122        2334444445555557899999999876

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.79  E-value=0.0014  Score=53.22  Aligned_cols=26  Identities=31%  Similarity=0.381  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|+|++|+||||+++.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999998654

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.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.78  E-value=0.0014  Score=44.19  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|..|+||||+++.+-+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998863

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.0092  Score=57.12  Aligned_cols=88  Identities=22%  Similarity=0.115  Sum_probs=53.1

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC--CCHHHHHHHHHHHhCCCCCC
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE--PNLMQIQEDIGKRIGFSTDS  240 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~i~~~~~~~~~~  240 (287)
                      ..++..+.....--..+-|-|.|..|+|||+|++.+++.. . +.+.-.+..|+.|.-  -..++|++.           
T Consensus       416 ~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~-~-k~~~~hv~~v~Cs~l~~~~~e~iQk~-----------  482 (952)
T KOG0735|consen  416 YKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYY-S-KDLIAHVEIVSCSTLDGSSLEKIQKF-----------  482 (952)
T ss_pred             hhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHh-c-cccceEEEEEechhccchhHHHHHHH-----------
Confidence            3333333333332345678899999999999999999987 4 444444555555431  112222221           


Q ss_pred             CCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          241 WQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       241 ~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                              +...+.+.+....-+|||||+..
T Consensus       483 --------l~~vfse~~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  483 --------LNNVFSEALWYAPSIIVLDDLDC  505 (952)
T ss_pred             --------HHHHHHHHHhhCCcEEEEcchhh
Confidence                    12223455667888999999964

>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=96.75  E-value=0.01  Score=47.87  Aligned_cols=87  Identities=15%  Similarity=0.122  Sum_probs=47.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc-----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC----CCCCCCCHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE-----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFST----DSWQGKSFE  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~-----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~----~~~~~~~~~  247 (287)
                      .-.+++|+|..|+|||||.+.+..+..++.     ..|.......+.+        .+.++.++...    ......+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~~q--------~~~l~~~~L~~~~~~~~~~~LSgG   91 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFIDQ--------LQFLIDVGLGYLTLGQKLSTLSGG   91 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEEhH--------HHHHHHcCCCccccCCCcCcCCHH
Confidence            457899999999999999999964321111     1111111122332        45666666421    111223332


Q ss_pred             HH-HHHHHHHhCCC--cEEEEEeCCCC
Q 043249          248 ER-ASDITNTLKHK--KFVLLSDDIWE  271 (287)
Q Consensus       248 ~l-~~~l~~~l~~k--r~LlVLDDvw~  271 (287)
                      +. .-.|.+.+-.+  .=+++||+--+
T Consensus        92 q~qrl~laral~~~~~p~llLlDEPt~  118 (176)
T cd03238          92 ELQRVKLASELFSEPPGTLFILDEPST  118 (176)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEeCCcc
Confidence            22 22345555556  66888898766

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.75  E-value=0.0081  Score=59.44  Aligned_cols=48  Identities=25%  Similarity=0.286  Sum_probs=35.4

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.+..++.|.+.+.-.           -...+-+.++|++|+|||+||+.+.+..
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~  511 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES  511 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            34678888777776665321           1234557889999999999999999865

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.75  E-value=0.023  Score=50.01  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=24.2

Q ss_pred             CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          175 KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       175 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....-+|+|-|.+|+||||+|+.+..-.
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3467899999999999999999987754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.74  E-value=0.023  Score=51.50  Aligned_cols=26  Identities=38%  Similarity=0.546  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|+++|.+|+||||++..+....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            45899999999999999999997655

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.74  E-value=0.0074  Score=54.92  Aligned_cols=49  Identities=22%  Similarity=0.354  Sum_probs=38.2

Q ss_pred             CCcccchHHHHHHHHHHHhcc------------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ------------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.++.++.+...+...            +...+-|-++|++|+||||+|+.+....
T Consensus        11 d~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        11 DKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999888887666531            1234678899999999999999998865

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.

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

Probab=96.73  E-value=0.0033  Score=48.72  Aligned_cols=39  Identities=21%  Similarity=0.410  Sum_probs=29.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      ++|.|+|..|+|||||++.+.+.. . +..+...+..+...
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 35666666676665

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.73  E-value=0.0087  Score=59.96  Aligned_cols=49  Identities=24%  Similarity=0.409  Sum_probs=39.1

Q ss_pred             CCcccchHHHHHHHHHHHhc-------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITE-------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+.+.+..       +.....++.++|+.|+|||.||+.+....
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999888743       22344688999999999999999887654

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=96.73  E-value=0.016  Score=52.91  Aligned_cols=48  Identities=15%  Similarity=0.257  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhccCC--------CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKK--------NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~--------~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.+..++.|.+++..+..        -.+-+-++|+.|+||||+|+.+....
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            4678999999999998876521        24557899999999999999987643

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.72  E-value=0.0097  Score=57.25  Aligned_cols=47  Identities=23%  Similarity=0.372  Sum_probs=38.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++..+. -.+.+-++|..|+||||+|+.+.+..
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999988887651 23556799999999999999998765

>PRK04040 adenylate kinase; Provisional

Probab=96.71  E-value=0.0017  Score=53.06  Aligned_cols=47  Identities=26%  Similarity=0.519  Sum_probs=32.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCC
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGF  236 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~  236 (287)
                      ..+|.|+|++|+||||+++.+.... .  ..|.+   +      +...+..+++...+.
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l-~--~~~~~---~------~~g~~~~~~a~~~g~   48 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL-K--EDYKI---V------NFGDVMLEVAKEEGL   48 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh-c--cCCeE---E------ecchHHHHHHHHcCC
Confidence            3689999999999999999998865 2  23332   2      234566666666554

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.71  E-value=0.016  Score=50.36  Aligned_cols=89  Identities=12%  Similarity=0.104  Sum_probs=48.9

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC-----CCCCHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW-----QGKSFEERA  250 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~-----~~~~~~~l~  250 (287)
                      .+..++.|+|.+|.|||||+..+.+..   ...+...+.  ...-.+..+  .+.+...+.+.-..     --.+...+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l---~~~~~~~VI--~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl~a~mv~  174 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRL---KDSVPCAVI--EGDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIA  174 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHh---ccCCCEEEE--CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHH
Confidence            389999999999999999999998875   223322222  222112222  12233333221001     112333445


Q ss_pred             HHHHHHhCCCcEEEEEeCCCC
Q 043249          251 SDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       251 ~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..+.......-=+|+++.|-+
T Consensus       175 ~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        175 DAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             HHHHHHhhcCCcEEEEECCCC
Confidence            555554444456778888864

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

Probab=96.71  E-value=0.013  Score=51.75  Aligned_cols=46  Identities=28%  Similarity=0.367  Sum_probs=35.8

Q ss_pred             ccchHHHHHHHHHHHhcc----C-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQ----K-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~----~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +=|.++.+++|.+...-+    +       ..++=|-+||++|.|||-||++|.+..
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            447888888887765321    1       356667899999999999999999965

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.70  E-value=0.0063  Score=55.92  Aligned_cols=99  Identities=16%  Similarity=0.238  Sum_probs=59.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH-HHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM-QIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~-~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      +-..++|+|..|+|||||++.+.+..     +.+..+.+-+++..... ++.++.+..-+...    ....+.+...   
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~  231 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQ  231 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHH
Confidence            56788999999999999999998754     23455667777765433 44544544322110    0011222111   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                         .+-.+.+++  +++..||++||+..-...+..+.
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REis  268 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIG  268 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHH
Confidence               123355666  48999999999976334455443

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.69  E-value=0.01  Score=54.49  Aligned_cols=98  Identities=19%  Similarity=0.229  Sum_probs=59.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH-HHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL-MQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~-~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      .-..++|+|..|+|||||++.+.+..     ..+..+.+-+++.... .++.++++..-+...    ....+.+...   
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            55788999999999999999997643     3356666778776543 345665544322110    0011122211   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+-.+.+++  +++..||++||+..-...+..|
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REI  271 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREI  271 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHH
Confidence               123355665  4899999999997633345554

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

Probab=96.69  E-value=0.012  Score=50.49  Aligned_cols=94  Identities=20%  Similarity=0.198  Sum_probs=58.4

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC-------CCCC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS-------WQGK  244 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~-------~~~~  244 (287)
                      ..-.+.=|+|.+|+|||.|+-.+.-.. ...    ..=..++|++....|+..++. +|++..+.....       ....
T Consensus        36 ~~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~  113 (256)
T PF08423_consen   36 PTGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVF  113 (256)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-S
T ss_pred             CCCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecC
Confidence            356789999999999999998775432 111    112468999999999988875 466655431100       0122


Q ss_pred             CHHHHHHHH---HHHh-CCCcEEEEEeCCCC
Q 043249          245 SFEERASDI---TNTL-KHKKFVLLSDDIWE  271 (287)
Q Consensus       245 ~~~~l~~~l---~~~l-~~kr~LlVLDDvw~  271 (287)
                      +.+++...|   ...+ .++-=|||+|.+-.
T Consensus       114 ~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaa  144 (256)
T PF08423_consen  114 DLEELLELLEQLPKLLSESKIKLIVIDSIAA  144 (256)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETSSH
T ss_pred             CHHHHHHHHHHHHhhccccceEEEEecchHH
Confidence            444444333   3333 25667999999865

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 ....

>PTZ00035 Rad51 protein; Provisional

Probab=96.69  E-value=0.034  Score=49.67  Aligned_cols=99  Identities=15%  Similarity=0.161  Sum_probs=59.9

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC------
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS------  240 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~------  240 (287)
                      |..+=..-.++-|+|..|+|||||+..+.-.. ...    ..=..++|+.....|++.++ ..++++++.....      
T Consensus       111 LgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~  188 (337)
T PTZ00035        111 LGGGIETGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIA  188 (337)
T ss_pred             hCCCCCCCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceE
Confidence            44433467899999999999999998876543 210    11235679998888888774 4445555442110      


Q ss_pred             -CCCCCHHHHHHHH---HHHhC-CCcEEEEEeCCCC
Q 043249          241 -WQGKSFEERASDI---TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       241 -~~~~~~~~l~~~l---~~~l~-~kr~LlVLDDvw~  271 (287)
                       ....+.+++...|   ...+. .+--|||+|-+..
T Consensus       189 ~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        189 YARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             EEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence             0122334443333   23333 4566899999865

>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=96.69  E-value=0.0054  Score=47.20  Aligned_cols=42  Identities=26%  Similarity=0.276  Sum_probs=31.0

Q ss_pred             EEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQE  228 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  228 (287)
                      |-++|.+|+|||+||+.+....   ..   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hc---ceEEEEecccccccccee
Confidence            5689999999999999998865   11   234467788777777654

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.

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

Probab=96.69  E-value=0.0092  Score=52.05  Aligned_cols=82  Identities=21%  Similarity=0.217  Sum_probs=53.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC--CCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH--DFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDIT  254 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~--~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~  254 (287)
                      ..++|-+.|++|.|||+|.+.+..+. .++.  .+....-+.++..    .++..-...        ..+-...+-++|.
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEinsh----sLFSKWFsE--------SgKlV~kmF~kI~  242 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINSH----SLFSKWFSE--------SGKLVAKMFQKIQ  242 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEehh----HHHHHHHhh--------hhhHHHHHHHHHH
Confidence            46889999999999999999999987 5543  3444444444432    333322221        2334566777788


Q ss_pred             HHhCCCc--EEEEEeCCCC
Q 043249          255 NTLKHKK--FVLLSDDIWE  271 (287)
Q Consensus       255 ~~l~~kr--~LlVLDDvw~  271 (287)
                      +.+.++.  .++.+|+|.+
T Consensus       243 ELv~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  243 ELVEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HHHhCCCcEEEEEeHHHHH
Confidence            8887654  4566788865

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.68  E-value=0.0013  Score=53.99  Aligned_cols=23  Identities=39%  Similarity=0.674  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|..|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999997753

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.67  E-value=0.0068  Score=51.63  Aligned_cols=91  Identities=18%  Similarity=0.219  Sum_probs=55.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE-----EecCCCCHHHHHHHHHHHhCCCCCC----CCCCCHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS-----VVSREPNLMQIQEDIGKRIGFSTDS----WQGKSFE  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv-----~vs~~~~~~~i~~~i~~~~~~~~~~----~~~~~~~  247 (287)
                      +..+++|||..|+|||||++.+..-.   +..+..+.|=     ..+ .....+-..++++.++.....    ....+-.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~---~pt~G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG  113 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE---EPTSGEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGG  113 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc---CCCCceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence            56799999999999999999997754   2222222221     112 112334556677777653211    1122222


Q ss_pred             HHH-HHHHHHhCCCcEEEEEeCCCC
Q 043249          248 ERA-SDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       248 ~l~-~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      +++ -.|.+.|.-+.=|||.|+--+
T Consensus       114 QrQRi~IARALal~P~liV~DEpvS  138 (268)
T COG4608         114 QRQRIGIARALALNPKLIVADEPVS  138 (268)
T ss_pred             hhhhHHHHHHHhhCCcEEEecCchh
Confidence            333 246778888888999998766

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.67  E-value=0.0054  Score=58.74  Aligned_cols=72  Identities=25%  Similarity=0.311  Sum_probs=50.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      .-+|.-++|++|+||||||..|....     -| .++=+..|.+-+...+-..|...+..+                 ..
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq~~-----------------s~  381 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQNH-----------------SV  381 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHhhc-----------------cc
Confidence            56899999999999999999998754     34 345667788777777666666655431                 11


Q ss_pred             hC--CCcEEEEEeCCCC
Q 043249          257 LK--HKKFVLLSDDIWE  271 (287)
Q Consensus       257 l~--~kr~LlVLDDvw~  271 (287)
                      |.  ++.-.||+|++.-
T Consensus       382 l~adsrP~CLViDEIDG  398 (877)
T KOG1969|consen  382 LDADSRPVCLVIDEIDG  398 (877)
T ss_pred             cccCCCcceEEEecccC
Confidence            21  4666778888754

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.67  E-value=0.011  Score=53.86  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.++|.+|+||||++..+....
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999987643

>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=96.67  E-value=0.0061  Score=49.33  Aligned_cols=23  Identities=39%  Similarity=0.769  Sum_probs=21.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|..|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998875

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.66  E-value=0.0088  Score=54.10  Aligned_cols=86  Identities=27%  Similarity=0.335  Sum_probs=51.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-.++.|.|.+|+|||||+..+.... .  ..-...+|++...  +...+.. -+++++......   ...+.+.+.+.+
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~-a--~~g~~VlYvs~EE--s~~qi~~-Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARL-A--KRGGKVLYVSGEE--SPEQIKL-RADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-H--hcCCeEEEEECCc--CHHHHHH-HHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            45799999999999999999987765 2  2224566766543  3344322 234555422221   223444444444


Q ss_pred             HHHhCCCcEEEEEeCCCC
Q 043249          254 TNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~~kr~LlVLDDvw~  271 (287)
                      .   ..+.-+||+|.+-.
T Consensus       155 ~---~~~~~lVVIDSIq~  169 (372)
T cd01121         155 E---ELKPDLVIIDSIQT  169 (372)
T ss_pred             H---hcCCcEEEEcchHH
Confidence            3   24667899999854

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.66  E-value=0.013  Score=56.01  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+.|+|..|+|||.|++.+.+..
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a  338 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYA  338 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHH
Confidence            3458999999999999999999976

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.66  E-value=0.019  Score=57.47  Aligned_cols=49  Identities=27%  Similarity=0.413  Sum_probs=38.3

Q ss_pred             CCcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+.+.+...       +.....+.++|+.|+|||+||+.+.+..
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            456899999999998877521       2234567789999999999999997754

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.66  E-value=0.02  Score=49.53  Aligned_cols=26  Identities=35%  Similarity=0.643  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+++.++|.+|+||||++..+....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            56899999999999999988887655

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.66  E-value=0.013  Score=52.94  Aligned_cols=26  Identities=31%  Similarity=0.576  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..++.++|+.|+||||++..+....
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998765

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.65  E-value=0.0046  Score=47.35  Aligned_cols=40  Identities=23%  Similarity=0.292  Sum_probs=28.6

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..++.+.|...-....+|.+.|.-|+||||+++.+....
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3344444443321245699999999999999999999876

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.

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

Probab=96.64  E-value=0.007  Score=55.10  Aligned_cols=49  Identities=22%  Similarity=0.343  Sum_probs=38.9

Q ss_pred             CCcccchHHHHHHHHHHHhcc------------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ------------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+..++...            +...+.|.++|++|+||||||+.+....
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999998877531            1124678999999999999999998765

>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=96.63  E-value=0.0018  Score=55.83  Aligned_cols=74  Identities=20%  Similarity=0.146  Sum_probs=61.0

Q ss_pred             ccc-chhhhhhhhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHHHH
Q 043249           12 DTI-RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETLQQ   90 (287)
Q Consensus        12 ~~v-~~l~~~l~~~~~~~~~~~~~~~~L~~~L~~l~~~l~d~~~~~~~ae~~~~~~~~~~~~~Wl~~lr~~a~d~eD~ld   90 (287)
                      +.+ ++|-++..+....+--++.+++.++.+|+.|+.||+.+      +++.+ ...+ ....+..++...||++|.++|
T Consensus       299 dFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V------~ee~~-nkh~-~~ed~a~~ii~kAyevEYVVD  370 (402)
T PF12061_consen  299 DFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHV------VEEPH-NKHD-TNEDCATQIIRKAYEVEYVVD  370 (402)
T ss_pred             HHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHH------Hhccc-hhhh-hhhhHHHHHHHHHhheeeeee
Confidence            444 77777888888888888999999999999999999986      56644 2333 489999999999999999999


Q ss_pred             hhH
Q 043249           91 ERD   93 (287)
Q Consensus        91 ~~~   93 (287)
                      .+-
T Consensus       371 aCi  373 (402)
T PF12061_consen  371 ACI  373 (402)
T ss_pred             hhh
Confidence            863

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.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=96.62  E-value=0.011  Score=54.26  Aligned_cols=98  Identities=18%  Similarity=0.225  Sum_probs=57.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      .-..++|+|..|+|||||++.+.+..     +.+..+++.+.+... ..+++.+....-....    -...+...-+   
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~~-----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~  228 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNAP-----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVR  228 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCCC-----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHH
Confidence            55788999999999999999987643     455667777766433 3355555433110000    0001111111   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+..+.+++  ++++.||++||+..-.....+|
T Consensus       229 a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REi  264 (433)
T PRK07594        229 ALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREI  264 (433)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCHHHHHHHHHHH
Confidence               123355665  3889999999997623334444

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.62  E-value=0.025  Score=47.47  Aligned_cols=89  Identities=21%  Similarity=0.178  Sum_probs=53.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC------------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST------------------  238 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~------------------  238 (287)
                      .-.++.|.|.+|+|||||+..+.....+   .-+..+|++....  ...+.+. +++++..-                  
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~---~g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~   92 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLR---DGDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE   92 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHh---cCCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence            5689999999999999999986543312   2346778776443  4444433 23322110                  


Q ss_pred             ----CCCCCCCHHHHHHHHHHHhCC---CcEEEEEeCCCC
Q 043249          239 ----DSWQGKSFEERASDITNTLKH---KKFVLLSDDIWE  271 (287)
Q Consensus       239 ----~~~~~~~~~~l~~~l~~~l~~---kr~LlVLDDvw~  271 (287)
                          ......+.+++...+++.++.   +.-++|+|.+-.
T Consensus        93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~  132 (229)
T TIGR03881        93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSA  132 (229)
T ss_pred             cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchh
Confidence                000124566777777766653   345788998753

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.61  E-value=0.035  Score=50.48  Aligned_cols=26  Identities=27%  Similarity=0.482  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|..|+||||.+..+....
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999998887655

>PRK09087 hypothetical protein; Validated

Probab=96.61  E-value=0.011  Score=49.84  Aligned_cols=25  Identities=32%  Similarity=0.291  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+.|+|..|+|||+|++.+....
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc
Confidence            4568999999999999999988754

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.60  E-value=0.013  Score=50.45  Aligned_cols=102  Identities=13%  Similarity=0.151  Sum_probs=62.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcc--ccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCCC----CCCCCCHHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCS--EEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFSTD----SWQGKSFEE-  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~--v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~~----~~~~~~~~~-  248 (287)
                      +-.-++|+|-.|+|||||+..+.+.. .  .+.+-+.++++-+.+... ..++.+++...-.....    ...+.+.-. 
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~-~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r  146 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQA-GVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIER  146 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhh-hccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHH
Confidence            44667999999999999999987764 2  123357889999988654 45566666554211100    001111111 


Q ss_pred             -----HHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          249 -----RASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 -----l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                           .+-.+.++++   +++.|+++||+..-...+.++
T Consensus       147 ~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEi  185 (276)
T cd01135         147 IITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREI  185 (276)
T ss_pred             HHHHHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHH
Confidence                 1234666664   689999999997633344444

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.60  E-value=0.0035  Score=59.00  Aligned_cols=90  Identities=19%  Similarity=0.226  Sum_probs=51.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEE-EEecCCCCHHHHHHHHHHHhCCC--CCCCCCCCH-----HH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIW-SVVSREPNLMQIQEDIGKRIGFS--TDSWQGKSF-----EE  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~w-v~vs~~~~~~~i~~~i~~~~~~~--~~~~~~~~~-----~~  248 (287)
                      +-.-..|+|.+|+|||||++.|.+..  ...+-++.++ +-|.+......   ++-..+...  ...++....     ..
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i--~~n~~~~~~ivvLIgERpeEVt---dm~rsVkgeVVasT~D~p~~~~~~~a~  489 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAI--TTNNPECHLMVVLVDERPEEVT---DMQRSVKGEVIASTFDRPPSDHTTVAE  489 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHH--hhcCCCeEEEEEEEeCchhhHH---HHHHhccceEEEECCCCCHHHHHHHHH
Confidence            44567899999999999999998864  2334455444 45565543332   222223110  001111111     12


Q ss_pred             HHHHHHHHh--CCCcEEEEEeCCCC
Q 043249          249 RASDITNTL--KHKKFVLLSDDIWE  271 (287)
Q Consensus       249 l~~~l~~~l--~~kr~LlVLDDvw~  271 (287)
                      ++-.+.++|  .++..||+||++..
T Consensus       490 ~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        490 LAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHcCCCEEEEEeCchH
Confidence            233455555  48999999999965

>PRK08149 ATP synthase SpaL; Validated

Probab=96.59  E-value=0.0082  Score=55.03  Aligned_cols=98  Identities=16%  Similarity=0.230  Sum_probs=57.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCCC----CCCCCCH-----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFSTD----SWQGKSF-----  246 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~~----~~~~~~~-----  246 (287)
                      +-..++|+|..|+|||||++.+.+..     +-+..+...+.... +...+..+.+........    ...+.+.     
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~  224 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCN  224 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHh
Confidence            55788999999999999999997743     22344444454432 455566666654322100    0011111     


Q ss_pred             -HHHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          247 -EERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       247 -~~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                       ...+..+.+++  ++|..||++||+.........+
T Consensus       225 a~~~a~tiAE~fr~~G~~Vll~~DslTr~A~A~rEi  260 (428)
T PRK08149        225 AALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDV  260 (428)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccchHHHHHHHHHh
Confidence             11233455555  4899999999997633344444

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.59  E-value=0.0019  Score=55.85  Aligned_cols=89  Identities=21%  Similarity=0.268  Sum_probs=48.5

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH-hCCCCCCCC
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR-IGFSTDSWQ  242 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~-~~~~~~~~~  242 (287)
                      ...+++.+...  + +-+-++|..|+|||++++...... . ...| ...-++.|...+...+++ ++++ +.....   
T Consensus        22 ~~~ll~~l~~~--~-~pvLl~G~~GtGKT~li~~~l~~l-~-~~~~-~~~~~~~s~~Tts~~~q~-~ie~~l~k~~~---   91 (272)
T PF12775_consen   22 YSYLLDLLLSN--G-RPVLLVGPSGTGKTSLIQNFLSSL-D-SDKY-LVITINFSAQTTSNQLQK-IIESKLEKRRG---   91 (272)
T ss_dssp             HHHHHHHHHHC--T-EEEEEESSTTSSHHHHHHHHHHCS-T-TCCE-EEEEEES-TTHHHHHHHH-CCCTTECECTT---
T ss_pred             HHHHHHHHHHc--C-CcEEEECCCCCchhHHHHhhhccC-C-cccc-ceeEeeccCCCCHHHHHH-HHhhcEEcCCC---
Confidence            35556666655  3 455799999999999999988754 2 2222 233455665544444433 3222 111000   


Q ss_pred             CCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          243 GKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                       .        .-.--.+|+.++.+||+--
T Consensus        92 -~--------~~gP~~~k~lv~fiDDlN~  111 (272)
T PF12775_consen   92 -R--------VYGPPGGKKLVLFIDDLNM  111 (272)
T ss_dssp             -E--------EEEEESSSEEEEEEETTT-
T ss_pred             -C--------CCCCCCCcEEEEEecccCC
Confidence             0        0000126888899999866

>PRK14974 cell division protein FtsY; Provisional

Probab=96.59  E-value=0.036  Score=49.42  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.++|++|+||||++..+....
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l  164 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL  164 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999888887655

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.58  E-value=0.0053  Score=51.74  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=20.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|++|+||||+|+.+....
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999998765

>PRK00625 shikimate kinase; Provisional

Probab=96.57  E-value=0.0021  Score=51.75  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.++||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997764

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

Probab=96.57  E-value=0.0074  Score=51.86  Aligned_cols=90  Identities=17%  Similarity=0.194  Sum_probs=61.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCC------------------
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS------------------  237 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~------------------  237 (287)
                      ...+++.|+|.+|+|||+++.+.....   ..+.+.++||+....  ...+.+...+ ++-.                  
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~   94 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENARS-FGWDLEVYIEKGKLAILDAFLS   94 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHHHH-cCCCHHHHhhcCCEEEEEcccc
Confidence            467899999999999999999987765   445889999999875  5555555533 2210                  


Q ss_pred             CCC-----C-CCCCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          238 TDS-----W-QGKSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       238 ~~~-----~-~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                      ...     . ...+...+...|.+.... +..-+|+|.+-.
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~~  135 (260)
T COG0467          95 EKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITE  135 (260)
T ss_pred             ccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCch
Confidence            000     0 123556666777766653 467788998863

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.56  E-value=0.006  Score=57.93  Aligned_cols=45  Identities=27%  Similarity=0.381  Sum_probs=37.1

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++|.+..++.+...+...  ....+-|+|.+|+||||+|+.+++..
T Consensus        66 ~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5799999988888777654  44566799999999999999998754

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.

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

Probab=96.55  E-value=0.017  Score=45.17  Aligned_cols=23  Identities=35%  Similarity=0.674  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998865

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

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.54  E-value=0.021  Score=52.96  Aligned_cols=101  Identities=16%  Similarity=0.240  Sum_probs=63.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      +-.-++|+|..|+|||||+..+.... . +.+-++++++-+.+... ..++.+++...-....    ....+.+.-    
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~-~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNI-S-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHH-H-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            45678999999999999999887765 2 33678888888877544 4456666654322110    001122221    


Q ss_pred             --HHHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+..+.++++   ++..||++|++..-......+
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REi  256 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIFRFVQAGSEV  256 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccchHHHHHHHHH
Confidence              12334667763   799999999996523334443

>PRK04328 hypothetical protein; Provisional

Probab=96.53  E-value=0.016  Score=49.48  Aligned_cols=89  Identities=12%  Similarity=0.195  Sum_probs=54.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC------------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST------------------  238 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~------------------  238 (287)
                      .-+++-|.|.+|+|||+|+..+....   -..-+..+|++....  +..+.+. +++++...                  
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~--~~~i~~~-~~~~g~d~~~~~~~~~l~iid~~~~~   95 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH--PVQVRRN-MRQFGWDVRKYEEEGKFAIVDAFTGG   95 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC--HHHHHHH-HHHcCCCHHHHhhcCCEEEEeccccc
Confidence            56899999999999999999865433   122456788887663  4444443 33333210                  


Q ss_pred             -------CCC---CCCCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          239 -------DSW---QGKSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       239 -------~~~---~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                             ...   ...+.+.+...+.+.++. +.-++|+|-+-.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~  139 (249)
T PRK04328         96 IGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVST  139 (249)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhH
Confidence                   000   123455666667766653 445799999843

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.53  E-value=0.0022  Score=51.67  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999997764

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

>PTZ00185 ATPase alpha subunit; Provisional

Probab=96.52  E-value=0.015  Score=54.21  Aligned_cols=102  Identities=9%  Similarity=0.103  Sum_probs=59.2

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccc-----cCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC-----CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSE-----EHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS-----WQGKS  245 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v-----~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~-----~~~~~  245 (287)
                      .-.-++|.|-.|+|||||| -.+.|.. .+     ..+-..++++.+++..+...-+.+.++.-+.-...     ..+.+
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~-~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep  266 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQV-RINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEP  266 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhh-hhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCC
Confidence            4456799999999999996 5555543 21     13446789999998765544344444443310000     01111


Q ss_pred             HHH------HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          246 FEE------RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       246 ~~~------l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ...      ..-.+.+++  +++..|||+||+..-...+..|
T Consensus       267 ~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REI  308 (574)
T PTZ00185        267 AGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQI  308 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHH
Confidence            111      122344555  4899999999997733345544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.50  E-value=0.011  Score=51.00  Aligned_cols=55  Identities=24%  Similarity=0.245  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHH
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQI  226 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i  226 (287)
                      .-++++..++..+    ..+-+.|.+|+|||+||+.+....   ..   ....++.+...+..++
T Consensus         9 ~l~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~~l---g~---~~~~i~~~~~~~~~dl   63 (262)
T TIGR02640         9 RVTSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVARKR---DR---PVMLINGDAELTTSDL   63 (262)
T ss_pred             HHHHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHHHh---CC---CEEEEeCCccCCHHHH
Confidence            3445555555543    345689999999999999998743   22   2345555555554444

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).

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.50  E-value=0.003  Score=50.77  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|.+|+||||+|+.+....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998876

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.49  E-value=0.015  Score=54.42  Aligned_cols=48  Identities=23%  Similarity=0.276  Sum_probs=33.5

Q ss_pred             CcccchHHHHHHHHHHHh---c-----cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT---E-----QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~-----~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++-|.+..++.+.+...   .     +-...+-|-++|++|+|||++|+.+.+..
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            346687766665554321   1     11245668899999999999999998865

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.49  E-value=0.003  Score=50.39  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +...|.++|++|+||||+|+.+....
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            34688999999999999999998865

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.49  E-value=0.0022  Score=51.86  Aligned_cols=23  Identities=26%  Similarity=0.405  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ||.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999997765

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.49  E-value=0.025  Score=52.32  Aligned_cols=102  Identities=15%  Similarity=0.244  Sum_probs=61.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      +-.-++|+|..|+|||||+..+.... .. ++=+.++++-+.+... +.++.+++...-....    ....+.+..    
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~-~~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNI-AK-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHH-Hh-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            45678999999999999999876654 21 2224677788877543 4456666665322110    001122221    


Q ss_pred             --HHHHHHHHHh---CCCcEEEEEeCCCCccccccccc
Q 043249          248 --ERASDITNTL---KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       248 --~l~~~l~~~l---~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                        ..+-.+.+++   +++..||++|++..-...+..++
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REis  258 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVS  258 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHHH
Confidence              1233467777   57999999999976233455443

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.49  E-value=0.0038  Score=55.78  Aligned_cols=46  Identities=24%  Similarity=0.353  Sum_probs=38.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+||.++.+..|+..+.++  .+.-+-|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999988888777666  66666799999999999999997754

>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=96.47  E-value=0.015  Score=45.35  Aligned_cols=112  Identities=15%  Similarity=0.119  Sum_probs=82.8

Q ss_pred             Cceeeccccccc-chhhhhhhhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHH
Q 043249            3 GIISTFFSADTI-RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEI   81 (287)
Q Consensus         3 ~~~~~~v~~~~v-~~l~~~l~~~~~~~~~~~~~~~~L~~~L~~l~~~l~d~~~~~~~ae~~~~~~~~~~~~~Wl~~lr~~   81 (287)
                      +.++.+++++++ +.+...+....+-...++.-++.|..+++.|..++.+++..-..-        +..-+.=+.++.+.
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~el--------d~~~~ee~e~L~~~   74 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVEL--------DRPRQEEIERLKEL   74 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhc--------CCchhHHHHHHHHH
Confidence            344555666777 889999999999999999999999999999999999987663211        12225667788888


Q ss_pred             HHHHHHHHHhhHHHhhhhhccCccCccchhHhHHHHHHHHHHHHHHHHHH
Q 043249           82 ETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWE  131 (287)
Q Consensus        82 a~d~eD~ld~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~l~~  131 (287)
                      ..++++++..|..-       ++  .++...+..+++|+++.+.+.....
T Consensus        75 L~~g~~LV~k~sk~-------~r--~n~~kk~~y~~Ki~~le~~l~~f~~  115 (147)
T PF05659_consen   75 LEKGKELVEKCSKV-------RR--WNLYKKPRYARKIEELEESLRRFIQ  115 (147)
T ss_pred             HHHHHHHHHHhccc-------cH--HHHHhhHhHHHHHHHHHHHHHHHhc
Confidence            88888998876421       01  3455666788888888888877664

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 [].

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.47  E-value=0.011  Score=52.05  Aligned_cols=87  Identities=15%  Similarity=0.150  Sum_probs=53.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-+++-|+|..|+||||||-.+....   +..-..++|+.....+++..     +++++...+..   ...+.++....+
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            56799999999999999999988765   33456789999988877654     44444421110   122334444555


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ +.--++|+|-|-.
T Consensus       124 e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT
T ss_pred             HHHhhcccccEEEEecCcc
Confidence            56565 4456889998865

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

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

Probab=96.46  E-value=0.0023  Score=52.14  Aligned_cols=23  Identities=39%  Similarity=0.612  Sum_probs=21.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998864

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.44  E-value=0.0036  Score=50.25  Aligned_cols=26  Identities=31%  Similarity=0.427  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            56799999999999999999999876

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.44  E-value=0.033  Score=51.40  Aligned_cols=25  Identities=36%  Similarity=0.760  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++.++|++|+||||++..+....
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~  245 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY  245 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999988876654

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.44  E-value=0.032  Score=47.10  Aligned_cols=52  Identities=13%  Similarity=0.213  Sum_probs=33.4

Q ss_pred             CceEEEEEccCCCcHHHHHHH-HHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQ-VNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG  235 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~-v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~  235 (287)
                      ...++.|.|..|+|||||+.. +++-.   +.. ...++++  ..-+...+++.+ .+++
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~---~~g-~~~~yi~--~e~~~~~~~~~~-~~~g   75 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL---QNG-YSVSYVS--TQLTTTEFIKQM-MSLG   75 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hCC-CcEEEEe--CCCCHHHHHHHH-HHhC
Confidence            456999999999999999754 45432   222 3445555  333567777776 3443

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.43  E-value=0.014  Score=56.36  Aligned_cols=76  Identities=17%  Similarity=0.270  Sum_probs=51.7

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      -+.++|.++..+.+...+...  .  .+-++|++|+||||+++.+.+.. . ...|...+++ .....+...+++.++..
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~--~--~~ll~G~pG~GKT~la~~la~~l-~-~~~~~~~~~~-~n~~~~~~~~~~~v~~~   89 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK--R--NVLLIGEPGVGKSMLAKAMAELL-P-DEELEDILVY-PNPEDPNMPRIVEVPAG   89 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC--C--CEEEECCCCCCHHHHHHHHHHHc-C-chhheeEEEE-eCCCCCchHHHHHHHHh
Confidence            356789998888777766654  2  44599999999999999999865 2 2234443433 23334566678888776


Q ss_pred             hCC
Q 043249          234 IGF  236 (287)
Q Consensus       234 ~~~  236 (287)
                      ++.
T Consensus        90 ~g~   92 (608)
T TIGR00764        90 EGR   92 (608)
T ss_pred             hch
Confidence            654

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

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

Probab=96.43  E-value=0.0029  Score=51.04  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|+|+.|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999987754

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.

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

Probab=96.42  E-value=0.0093  Score=44.99  Aligned_cols=47  Identities=19%  Similarity=0.362  Sum_probs=36.6

Q ss_pred             CcccchHHHHHHHHHHHhc-----cCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITE-----QKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~-----~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..++|..-..+.+++.+..     ...++-|++..|..|+|||.+++.+.+.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            4578877666666666542     2568899999999999999998888766

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

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.41  E-value=0.013  Score=53.66  Aligned_cols=90  Identities=18%  Similarity=0.146  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW  241 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~  241 (287)
                      ....++.+.+...   ..++.|+|+-++||||+++.+....   .+.   .+++..-.......                
T Consensus        24 ~~~~~l~~~~~~~---~~i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~----------------   78 (398)
T COG1373          24 KLLPRLIKKLDLR---PFIILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRI----------------   78 (398)
T ss_pred             hhhHHHHhhcccC---CcEEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchh----------------
Confidence            4444454444433   2299999999999999997776654   122   34443322110000                


Q ss_pred             CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCccccccccc
Q 043249          242 QGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       242 ~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                         ...+....+...-..++.+|+||.|.+ ..+|+..-
T Consensus        79 ---~l~d~~~~~~~~~~~~~~yifLDEIq~-v~~W~~~l  113 (398)
T COG1373          79 ---ELLDLLRAYIELKEREKSYIFLDEIQN-VPDWERAL  113 (398)
T ss_pred             ---hHHHHHHHHHHhhccCCceEEEecccC-chhHHHHH
Confidence               001111111111112788999999999 88887653

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

Probab=96.40  E-value=0.023  Score=56.03  Aligned_cols=48  Identities=23%  Similarity=0.361  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++.++.|.+.+...       +.....+-++|+.|+|||+||+.+....
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            45789999999998887631       2234678899999999999999997765

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.40  E-value=0.051  Score=44.13  Aligned_cols=35  Identities=20%  Similarity=0.238  Sum_probs=26.5

Q ss_pred             HHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          166 QVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       166 ~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+.+..+  ++ ..+-++|+.|+||||+|+.+-...
T Consensus         3 ~l~~~i~~~--~~~~~~L~~G~~G~gkt~~a~~~~~~l   38 (188)
T TIGR00678         3 QLKRALEKG--RLAHAYLFAGPEGVGKELLALALAKAL   38 (188)
T ss_pred             HHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344455444  44 678899999999999999987765

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.

>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=96.40  E-value=0.0029  Score=48.96  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=20.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|..|+||||+|+.+-...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.39  E-value=0.0083  Score=57.88  Aligned_cols=75  Identities=15%  Similarity=0.222  Sum_probs=56.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI  234 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~  234 (287)
                      +.++|.++.++.|...+...    +.+-++|.+|+||||+|+.+.... . ..+|+..+|..-+ ..+...+++.++..+
T Consensus        31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l-~-~~~~~~~~~~~np-~~~~~~~~~~v~~~~  103 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL-P-KEELQDILVYPNP-EDPNNPKIRTVPAGK  103 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc-C-hHhHHHheEeeCC-CcchHHHHHHHHHhc
Confidence            45789988888887766654    368899999999999999998765 2 3356777886553 347778888888766


Q ss_pred             CC
Q 043249          235 GF  236 (287)
Q Consensus       235 ~~  236 (287)
                      +.
T Consensus       104 G~  105 (637)
T PRK13765        104 GK  105 (637)
T ss_pred             CH
Confidence            54

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

Probab=96.37  E-value=0.0028  Score=50.25  Aligned_cols=20  Identities=40%  Similarity=0.685  Sum_probs=18.6

Q ss_pred             EEEEEccCCCcHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~  199 (287)
                      .|+|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999986

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.36  E-value=0.0036  Score=51.62  Aligned_cols=26  Identities=35%  Similarity=0.422  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998864

>PRK06217 hypothetical protein; Validated

Probab=96.36  E-value=0.0032  Score=51.12  Aligned_cols=34  Identities=26%  Similarity=0.422  Sum_probs=25.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCC--CEEEEE
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDF--DVVIWS  215 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F--~~~~wv  215 (287)
                      .|.|.|++|+||||+|+.+.... .. .+|  |..+|-
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l-~~-~~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL-DI-PHLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc-CC-cEEEcCceeec
Confidence            48899999999999999998876 32 233  445564

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.35  E-value=0.0063  Score=54.25  Aligned_cols=45  Identities=22%  Similarity=0.329  Sum_probs=36.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.+||.+..+..++-.+.++  ...-+.|.|..|+|||||++.+..-
T Consensus         4 ~~ivgq~~~~~al~~~~~~~--~~g~vli~G~~G~gKttl~r~~~~~   48 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP--KIGGVMVMGDRGTGKSTAVRALAAL   48 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC--CCCeEEEEcCCCCCHHHHHHHHHHh
Confidence            35799999998887666665  5666779999999999999999643

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.35  E-value=0.023  Score=53.30  Aligned_cols=26  Identities=38%  Similarity=0.718  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|.+|+||||++..+....
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999999998887654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.35  E-value=0.0053  Score=58.50  Aligned_cols=47  Identities=30%  Similarity=0.359  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+.+++..+. -.+-+-++|+.|+||||+|+.+.+..
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999998886652 23567799999999999999997764

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

Probab=96.35  E-value=0.044  Score=48.32  Aligned_cols=46  Identities=20%  Similarity=0.268  Sum_probs=36.2

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|-+.....+..+.........-+-++|++|+||||+|..+.+..
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l   48 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKEL   48 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHH
Confidence            5677788888888887543233348899999999999999998765

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.35  E-value=0.0036  Score=51.85  Aligned_cols=31  Identities=16%  Similarity=0.411  Sum_probs=24.9

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +..+....+.|.|+|+.|+|||||++.+...
T Consensus         6 ~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          6 LFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             ccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3334447789999999999999999999653

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.35  E-value=0.0079  Score=51.91  Aligned_cols=64  Identities=22%  Similarity=0.260  Sum_probs=46.7

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQE  228 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  228 (287)
                      ..+++..|.....+..+|+|.|.||+||+||.-.+-... ..+.|=-.++=|.-|..|+--.|+-
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiLG  100 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSILG  100 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCccccc
Confidence            456777777666688999999999999999999988877 4445544555566666666555543

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.35  E-value=0.003  Score=50.91  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|+|+.|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999998743

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.34  E-value=0.016  Score=49.89  Aligned_cols=99  Identities=11%  Similarity=0.175  Sum_probs=56.5

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCCE-EEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFDV-VIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE-  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~~-~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~-  248 (287)
                      +-.-++|+|..|+|||+|| ..+.+..     +-+. ++++-+.+... ..++.+++...-....    ....+.+... 
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r  142 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQ  142 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHH
Confidence            4467799999999999995 6565532     2233 46777777644 4456666554321110    0001111111 


Q ss_pred             -----HHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          249 -----RASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       249 -----l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                           .+-.+.+++  +++..||++||+..-...|..+.
T Consensus       143 ~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEis  181 (274)
T cd01132         143 YLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMS  181 (274)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHH
Confidence                 122344444  48999999999977334566654

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.33  E-value=0.0044  Score=50.96  Aligned_cols=26  Identities=19%  Similarity=0.422  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|+|++|+||||||+.+....
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999999998764

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.33  E-value=0.019  Score=47.82  Aligned_cols=89  Identities=22%  Similarity=0.408  Sum_probs=53.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC----CCCCCCCHHH----
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST----DSWQGKSFEE----  248 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~----~~~~~~~~~~----  248 (287)
                      -.-++|+|..|+|||+|+..+.+..     .-++.+++.+++.. ...++.+++...-....    ....+.....    
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~   89 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRA   89 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHH
T ss_pred             CCEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhh
Confidence            3667899999999999999998865     23345888887763 34455555543211100    0001122111    


Q ss_pred             --HHHHHHHHh--CCCcEEEEEeCCCC
Q 043249          249 --RASDITNTL--KHKKFVLLSDDIWE  271 (287)
Q Consensus       249 --l~~~l~~~l--~~kr~LlVLDDvw~  271 (287)
                        ..-.+.+++  ++|..|+++||+..
T Consensus        90 ~~~a~t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   90 PYTALTIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHHHHHHTTSEEEEEEETHHH
T ss_pred             hccchhhhHHHhhcCCceeehhhhhHH
Confidence              111233333  59999999999855

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

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

Probab=96.32  E-value=0.0065  Score=49.24  Aligned_cols=36  Identities=33%  Similarity=0.440  Sum_probs=29.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV  216 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~  216 (287)
                      .++|.|+|+.|+|||||++.+....   ..+|...++.+
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            4788999999999999999999976   66785444444

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 ....

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.32  E-value=0.006  Score=57.00  Aligned_cols=45  Identities=27%  Similarity=0.368  Sum_probs=37.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .++||.+..++.+.+.+..+  ++ +-+-++|+.|+||||+|+.+...
T Consensus        13 ~dliGQe~vv~~L~~a~~~~--ri~ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLN--KIPQSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCceEEEECCCCccHHHHHHHHHHH
Confidence            45899999999888887766  44 47889999999999999998653

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.32  E-value=0.027  Score=51.82  Aligned_cols=98  Identities=18%  Similarity=0.268  Sum_probs=59.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      +-..++|+|..|+|||||.+.+.+..     .-++++.+-+++... ..++.+..+..-+...    ....+.+.-.   
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            56788999999999999999998854     335778888877643 3344444333211110    0011122211   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+..+.+++  ++|+.||++||+..-......+
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~DslTR~A~A~REi  271 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREI  271 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence               123355555  4899999999997623344444

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.31  E-value=0.017  Score=47.63  Aligned_cols=23  Identities=43%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..+|+|.|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999998855

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.31  E-value=0.011  Score=54.47  Aligned_cols=99  Identities=20%  Similarity=0.152  Sum_probs=52.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC---CCCCCCCHH------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST---DSWQGKSFE------  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~---~~~~~~~~~------  247 (287)
                      .-..++|+|..|+|||||++.+....    .....+++..=-..-++..+....+.......   -...+.+..      
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~  239 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAP  239 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHH
Confidence            45689999999999999999886643    12223333322123344444444443321100   000111111      


Q ss_pred             HHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          248 ERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 ~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ..+-.+.+++  +++..||++||+..-......|
T Consensus       240 ~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~rEi  273 (450)
T PRK06002        240 LTATAIAEYFRDRGENVLLIVDSVTRFAHAAREV  273 (450)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchHHHHHHHHHH
Confidence            1122345555  3899999999997622334443

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.049  Score=49.99  Aligned_cols=25  Identities=32%  Similarity=0.586  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+++++|..|+||||++..+...
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999987654

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

Probab=96.29  E-value=0.0033  Score=46.29  Aligned_cols=22  Identities=45%  Similarity=0.759  Sum_probs=19.2

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |-|+|.+|+|||+||+.+..+.
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            4589999999999999987765

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

>PRK13949 shikimate kinase; Provisional

Probab=96.29  E-value=0.0038  Score=50.08  Aligned_cols=23  Identities=43%  Similarity=0.442  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.|+|++|+||||+++.+....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998765

>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=96.29  E-value=0.0039  Score=46.36  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=19.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|..|+|||||.+.+.+..
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            6799999999999999998765

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.28  E-value=0.004  Score=51.05  Aligned_cols=25  Identities=32%  Similarity=0.470  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|+|=||-|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            5789999999999999999998877

>PRK04182 cytidylate kinase; Provisional

Probab=96.26  E-value=0.013  Score=47.09  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=21.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            78999999999999999998865

>PRK10536 hypothetical protein; Provisional

Probab=96.26  E-value=0.041  Score=46.95  Aligned_cols=43  Identities=19%  Similarity=0.220  Sum_probs=35.6

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.++......++.+|.+.    .++.+.|..|+|||+||..+.-+.
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            3567888888888888653    489999999999999999988764

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.26  E-value=0.027  Score=51.96  Aligned_cols=101  Identities=17%  Similarity=0.250  Sum_probs=63.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      +-.-++|+|..|+|||+|+..+.... . +.+-++++++-+.+... ..++.+++...-....    ....+.+.-    
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~-~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNM-V-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHH-H-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            45678999999999999999987764 2 23457888998887654 3456666554311110    001122221    


Q ss_pred             --HHHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+-.+.++++   ++..||++||+..-...+.+|
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REi  251 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEV  251 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHHHHHHHHHH
Confidence              12334667765   689999999997633345444

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.26  E-value=0.015  Score=52.61  Aligned_cols=38  Identities=24%  Similarity=0.357  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+.+++.+...  ....+.|.|.||+|||+|.+.+.+..
T Consensus         9 ~~~~v~~~~~~~--~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen    9 VFDTVIEAIENE--EGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             HHHHHHHHHHcc--CCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            345556666554  66788999999999999999999877

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.25  E-value=0.02  Score=50.74  Aligned_cols=90  Identities=20%  Similarity=0.265  Sum_probs=52.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC-CCHHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE-PNLMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-~~~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      .-..++|+|..|+|||||++.+.+..     +-++.+...+... -+...+....+..-+...    ....+.+..    
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~-----~~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~  142 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGT-----TADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVK  142 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC-----CCCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHH
Confidence            45678999999999999999987754     2234455555543 344555555554322210    000111111    


Q ss_pred             --HHHHHHHHHh--CCCcEEEEEeCCCC
Q 043249          248 --ERASDITNTL--KHKKFVLLSDDIWE  271 (287)
Q Consensus       248 --~l~~~l~~~l--~~kr~LlVLDDvw~  271 (287)
                        ..+-.+.+++  ++|..||++||+..
T Consensus       143 ~~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         143 AAYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence              1122344554  48999999999876

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>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=96.25  E-value=0.0055  Score=48.24  Aligned_cols=25  Identities=36%  Similarity=0.571  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..||=|.|.+|.||||||+.+....
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            4688899999999999999999987

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 ....

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=96.24  E-value=0.019  Score=52.72  Aligned_cols=99  Identities=18%  Similarity=0.265  Sum_probs=54.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC-CCHHHHHHHHHHHhCCCC-------CC---CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE-PNLMQIQEDIGKRIGFST-------DS---WQGKS  245 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-~~~~~i~~~i~~~~~~~~-------~~---~~~~~  245 (287)
                      +-..++|+|..|+|||||++.+.+..     +.+..+...+... -...++....+..-+...       ..   .....
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~~-----~~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~  228 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRYT-----QADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIK  228 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhccc-----CCCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHH
Confidence            56789999999999999999987643     2233333334332 123333333333322110       00   00111


Q ss_pred             HHHHHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          246 FEERASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       246 ~~~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                      ....+..+.+++  +++..||++||+......+.+|+
T Consensus       229 a~e~a~~iAEyfr~~g~~Vll~~Dsltr~a~A~REis  265 (434)
T PRK07196        229 ATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIA  265 (434)
T ss_pred             HHHHHHHHHHHhhhccCCEEEeecchhHHHhhhhHHH
Confidence            122333455554  38999999999977334555554

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

Probab=96.24  E-value=0.0038  Score=48.75  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            46789999999999999997754

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

>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=96.24  E-value=0.011  Score=50.29  Aligned_cols=63  Identities=17%  Similarity=0.168  Sum_probs=38.5

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHH
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQI  226 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i  226 (287)
                      ....+++.+.....+..+|+|.|.+|.||+||.-.+.... ..+.+=-.++=|.-|..++--.|
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCCCCCcc
Confidence            4566777776655578899999999999999999988776 33332223444444555554443

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.24  E-value=0.021  Score=50.87  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+.|++|.||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999998776

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 eukaryotic proteins with this activity.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.23  E-value=0.021  Score=47.81  Aligned_cols=48  Identities=23%  Similarity=0.403  Sum_probs=36.3

Q ss_pred             CcccchHHHHHHHHHHHhc--cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE--QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+...+.+++--..  .+....-+-+||..|+||++|++++.+..
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            4579999888877653321  12244567899999999999999999976

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

Probab=96.23  E-value=0.0086  Score=53.11  Aligned_cols=49  Identities=18%  Similarity=0.335  Sum_probs=42.7

Q ss_pred             CCcccchHHHHHHHHHHHhcc----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.++.++++++.+.+.    +..-+|+-++|+.|.|||||+..+-+-.
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            346899999999999999753    4567899999999999999999998766

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

>PRK13947 shikimate kinase; Provisional

Probab=96.22  E-value=0.0044  Score=49.52  Aligned_cols=23  Identities=43%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.|+|++|+||||+|+.+-+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998865

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.22  E-value=0.05  Score=52.58  Aligned_cols=46  Identities=24%  Similarity=0.347  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+...+.|.+++..+  .+ +.+-++|..|+||||+|+.+....
T Consensus        17 ~~viGq~~~~~~L~~~i~~~--~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATN--KLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999998766  44 457899999999999999876653

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.22  E-value=0.025  Score=45.32  Aligned_cols=84  Identities=13%  Similarity=0.149  Sum_probs=45.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCC-CCCHHHHHHHHHHHhC
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQ-GKSFEERASDITNTLK  258 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~-~~~~~~l~~~l~~~l~  258 (287)
                      ++.|.|.+|+||||+|..+.... .  .   ..+++.....++ .+..+.|-.........+. -.....+...+.....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~-~--~---~~~~iat~~~~~-~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~   75 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS-G--L---QVLYIATAQPFD-DEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAA   75 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc-C--C---CcEeCcCCCCCh-HHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcC
Confidence            68899999999999999997653 1  1   123444444333 3455555443332222221 1122234444544444


Q ss_pred             CCcEEEEEeCCCC
Q 043249          259 HKKFVLLSDDIWE  271 (287)
Q Consensus       259 ~kr~LlVLDDvw~  271 (287)
                      +.. ++++|.+-.
T Consensus        76 ~~~-~VlID~Lt~   87 (170)
T PRK05800         76 PGR-CVLVDCLTT   87 (170)
T ss_pred             CCC-EEEehhHHH
Confidence            333 688888643

>PRK14530 adenylate kinase; Provisional

Probab=96.21  E-value=0.0046  Score=51.55  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.|+|++|+||||+++.+....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999997765

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.20  E-value=0.046  Score=52.52  Aligned_cols=47  Identities=23%  Similarity=0.354  Sum_probs=37.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|-+..++.|.+++..+ .-...+-++|+.|+||||+|+.+.+..
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L   62 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKAL   62 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            35789988888888888765 124677789999999999999998765

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.19  E-value=0.067  Score=52.53  Aligned_cols=25  Identities=32%  Similarity=0.607  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|+.++|+.|+||||++..+....
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            5799999999999999988887654

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.19  E-value=0.0042  Score=50.55  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997754

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.19  E-value=0.0059  Score=49.68  Aligned_cols=93  Identities=18%  Similarity=0.191  Sum_probs=48.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHH-HHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQ-EDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~-~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      ...+.|+|..|.|||||++.+..-. .  ..-...   .+. +.....+. ...+ ++................+.++..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i-~--~~~~~i---~ie-d~~E~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~   96 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI-P--PDERII---TIE-DTAELQLPHPNWV-RLVTRPGNVEGSGEVTMADLLRSA   96 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc-C--CCCCEE---EEC-CccccCCCCCCEE-EEEEecCCCCCCCccCHHHHHHHH
Confidence            4689999999999999999987754 2  111111   111 11100000 0000 000000000111122344556677


Q ss_pred             hCCCcEEEEEeCCCCcccccccc
Q 043249          257 LKHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       257 l~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ++..+=.++++++++ .+.|+-+
T Consensus        97 lR~~pd~i~igEir~-~ea~~~~  118 (186)
T cd01130          97 LRMRPDRIIVGEVRG-GEALDLL  118 (186)
T ss_pred             hccCCCEEEEEccCc-HHHHHHH
Confidence            777777888999998 6665543

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.

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

Probab=96.18  E-value=0.0067  Score=51.64  Aligned_cols=61  Identities=21%  Similarity=0.294  Sum_probs=38.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE-------EecCCCCHHHH--HHHHHHHhCCC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS-------VVSREPNLMQI--QEDIGKRIGFS  237 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv-------~vs~~~~~~~i--~~~i~~~~~~~  237 (287)
                      +++..|-++||+|.||||..+.++.+. ..+..-..++-.       ....+.|+.+.  .++.+++.++.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl-~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LG   86 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL-HAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLG   86 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH-hhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCC
Confidence            466788899999999999999999887 322221122211       12233444443  45777876653

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.18  E-value=0.01  Score=53.30  Aligned_cols=47  Identities=21%  Similarity=0.350  Sum_probs=38.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+.+++..+. -.+.+-++|.+|+||||+|+.+....
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999999887652 34567899999999999999987764

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.18  E-value=0.07  Score=49.04  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|..|+||||++..+....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998886544

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.18  E-value=0.0085  Score=47.29  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=27.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV  217 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v  217 (287)
                      |++|+|+.|+|||||+..+.... + ...+...+.-+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l-~-~~G~~V~viK~~   36 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL-K-ARGYRVATIKHD   36 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-H-hcCCeEEEEecc
Confidence            58999999999999999999976 3 234555544443

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.

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

Probab=96.17  E-value=0.0075  Score=51.09  Aligned_cols=48  Identities=23%  Similarity=0.342  Sum_probs=38.1

Q ss_pred             CcccchHHHHH---HHHHHHhcc----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILD---QVWRCITEQ----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~---~l~~~L~~~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.++.+.   -|++.|.++    +..++-|..+|++|.|||.+|+++.|..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            45789887654   467777765    3567889999999999999999998865

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

Probab=96.17  E-value=0.015  Score=54.78  Aligned_cols=73  Identities=25%  Similarity=0.264  Sum_probs=46.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITN  255 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~  255 (287)
                      ...+.+-++|++|+|||.||+++.+..   ..+|-.+.+     .        +++..       +-..+...+...+..
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~-----~--------~l~sk-------~vGesek~ir~~F~~  330 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKG-----S--------ELLSK-------WVGESEKNIRELFEK  330 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeC-----H--------HHhcc-------ccchHHHHHHHHHHH
Confidence            356688999999999999999999954   444533221     1        11111       112233344444555


Q ss_pred             HhCCCcEEEEEeCCCC
Q 043249          256 TLKHKKFVLLSDDIWE  271 (287)
Q Consensus       256 ~l~~kr~LlVLDDvw~  271 (287)
                      ..+...+.|.+|++.+
T Consensus       331 A~~~~p~iiFiDEiDs  346 (494)
T COG0464         331 ARKLAPSIIFIDEIDS  346 (494)
T ss_pred             HHcCCCcEEEEEchhh
Confidence            5567888999998866

>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=96.17  E-value=0.0049  Score=48.15  Aligned_cols=22  Identities=41%  Similarity=0.522  Sum_probs=19.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|++|+||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998765

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.17  E-value=0.054  Score=48.87  Aligned_cols=26  Identities=42%  Similarity=0.632  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++.++|+.|+||||++..+....
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l  230 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL  230 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999999987655

>PRK13975 thymidylate kinase; Provisional

Probab=96.16  E-value=0.0055  Score=50.13  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|.|.|+.|+||||+++.+....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999977

>PRK05642 DNA replication initiation factor; Validated

Probab=96.16  E-value=0.018  Score=48.78  Aligned_cols=38  Identities=21%  Similarity=0.495  Sum_probs=27.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEec
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVS  218 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs  218 (287)
                      ...+.|+|..|+|||.|++.+.+.. ..+  -..++|++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~-~~~--~~~v~y~~~~   82 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF-EQR--GEPAVYLPLA   82 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH-HhC--CCcEEEeeHH
Confidence            3678899999999999999998865 212  2345666653

>PRK15453 phosphoribulokinase; Provisional

Probab=96.15  E-value=0.067  Score=46.27  Aligned_cols=78  Identities=17%  Similarity=0.167  Sum_probs=43.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE-EEEEEecC--CCCHHHHHHHHH--HHhCC--CCCCCCCCCHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV-VIWSVVSR--EPNLMQIQEDIG--KRIGF--STDSWQGKSFEER  249 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~-~~wv~vs~--~~~~~~i~~~i~--~~~~~--~~~~~~~~~~~~l  249 (287)
                      +..+|+|.|..|+||||+++.+.... ..   ... .+.++-..  .++...+-..+.  +.-+.  ..-+....+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if-~~---~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL   79 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF-RR---ENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL   79 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hh---cCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence            66899999999999999999998655 21   111 22222211  123333322221  11221  1112355677778


Q ss_pred             HHHHHHHhC
Q 043249          250 ASDITNTLK  258 (287)
Q Consensus       250 ~~~l~~~l~  258 (287)
                      .+.|+.+.+
T Consensus        80 ~~~l~~l~~   88 (290)
T PRK15453         80 EQLFREYGE   88 (290)
T ss_pred             HHHHHHHhc
Confidence            888887665

>PRK06620 hypothetical protein; Validated

Probab=96.15  E-value=0.014  Score=48.74  Aligned_cols=49  Identities=22%  Similarity=0.090  Sum_probs=30.6

Q ss_pred             CCcccch-HH-HHHHHHHHHhccCCCc--eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQ-ES-ILDQVWRCITEQKKNN--GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr-~~-~~~~l~~~L~~~~~~~--~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.++|- .. ....+.++-...+.+.  ..+-|+|++|+|||+|++.+.+..
T Consensus        16 d~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         16 DEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             hhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhcc
Confidence            4456776 22 3333333332111122  568899999999999999987754

>PF14516 AAA_35: AAA-like domain

Probab=96.14  E-value=0.12  Score=46.12  Aligned_cols=111  Identities=16%  Similarity=0.250  Sum_probs=69.2

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC-----CCHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE-----PNLMQIQED  229 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-----~~~~~i~~~  229 (287)
                      +..|.|...-+++.+.|..+   ...+.|.|+..+|||||...+.+.. + +..+. .+++.+..-     .+...+++.
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~~---G~~~~I~apRq~GKTSll~~l~~~l-~-~~~~~-~v~id~~~~~~~~~~~~~~f~~~   84 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQP---GSYIRIKAPRQMGKTSLLLRLLERL-Q-QQGYR-CVYIDLQQLGSAIFSDLEQFLRW   84 (331)
T ss_pred             CcccCchHHHHHHHHHHhcC---CCEEEEECcccCCHHHHHHHHHHHH-H-HCCCE-EEEEEeecCCCcccCCHHHHHHH
Confidence            44578886666677767653   3688999999999999999998876 3 23554 446765541     245555555


Q ss_pred             HH----HHhCCCCCC---C--CCCCHHHHHHHHHHHh-C--CCcEEEEEeCCCC
Q 043249          230 IG----KRIGFSTDS---W--QGKSFEERASDITNTL-K--HKKFVLLSDDIWE  271 (287)
Q Consensus       230 i~----~~~~~~~~~---~--~~~~~~~l~~~l~~~l-~--~kr~LlVLDDvw~  271 (287)
                      ++    ++++....-   +  ...+.......+.+++ .  +++.+|+||+|..
T Consensus        85 ~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~  138 (331)
T PF14516_consen   85 FCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDR  138 (331)
T ss_pred             HHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhh
Confidence            54    445442100   0  0112233344455543 2  6899999999976

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

Probab=96.14  E-value=0.0044  Score=52.10  Aligned_cols=94  Identities=17%  Similarity=0.243  Sum_probs=54.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhc-----------c----------ccCCCCEEEEEEecCCCC------------H
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFC-----------S----------EEHDFDVVIWSVVSREPN------------L  223 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~-----------~----------v~~~F~~~~wv~vs~~~~------------~  223 (287)
                      .-..++|+|..|+|||||.+.+..-..           .          +-+++....|-+|-++..            .
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~l~l~~~~~~~~e~  107 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVALGLELRGKSKAEA  107 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhheehhhccccchHhH
Confidence            567899999999999999999864220           0          112223445665544321            2


Q ss_pred             HHHHHHHHHHhCCCCC---CCCCC--CHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTD---SWQGK--SFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~---~~~~~--~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .....++++.++....   .+...  ...++ -.|.+.|...+=+|+||+=..
T Consensus       108 ~~~a~~~L~~VgL~~~~~~~P~qLSGGMrQR-VaiARAL~~~P~lLLlDEPFg  159 (248)
T COG1116         108 RERAKELLELVGLAGFEDKYPHQLSGGMRQR-VAIARALATRPKLLLLDEPFG  159 (248)
T ss_pred             HHHHHHHHHHcCCcchhhcCccccChHHHHH-HHHHHHHhcCCCEEEEcCCcc
Confidence            3466777777776321   11111  22233 245666666666777887554

>PRK13695 putative NTPase; Provisional

Probab=96.14  E-value=0.0084  Score=48.14  Aligned_cols=34  Identities=32%  Similarity=0.514  Sum_probs=25.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS  215 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv  215 (287)
                      .|.|.|.+|+|||||++.+++.. .. ..|...-|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l-~~-~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL-KE-EGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-HH-CCCeEEEEE
Confidence            47899999999999999998876 32 235444454

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

Probab=96.14  E-value=0.013  Score=48.89  Aligned_cols=23  Identities=35%  Similarity=0.631  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|+|+|-||+||||+|..+....
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l   24 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL   24 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH
Confidence            68999999999999999955544

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.14  E-value=0.036  Score=48.00  Aligned_cols=48  Identities=27%  Similarity=0.318  Sum_probs=37.2

Q ss_pred             CcccchHHHHHHHHHHHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++-|.+..++.|.+...-          ....++=|.++|++|.||+.||++|....
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA  190 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA  190 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc
Confidence            4466888888888776432          12347888999999999999999998865

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.13  E-value=0.0083  Score=57.35  Aligned_cols=46  Identities=20%  Similarity=0.274  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++..+  ++ +.+-++|+.|+||||+|+.+.+..
T Consensus        13 ~eivGq~~i~~~L~~~i~~~--r~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAG--RINHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999998876  44 456899999999999999998764

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=96.13  E-value=0.021  Score=52.64  Aligned_cols=103  Identities=10%  Similarity=0.120  Sum_probs=64.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC--CCC---------EEEEEEecCCCCHHHHHHHHHHHhC-CCCC----C
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH--DFD---------VVIWSVVSREPNLMQIQEDIGKRIG-FSTD----S  240 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~--~F~---------~~~wv~vs~~~~~~~i~~~i~~~~~-~~~~----~  240 (287)
                      +-.-++|+|-.|+|||||+..+.+.. +...  -.|         .++++.+++.....+.+...+..-+ ....    .
T Consensus       140 ~GQRigIfagsGvGKs~L~~~i~~~~-~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~a  218 (466)
T TIGR01040       140 RGQKIPIFSAAGLPHNEIAAQICRQA-GLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLN  218 (466)
T ss_pred             cCCeeeeecCCCCCHHHHHHHHHHhh-ccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEE
Confidence            45678999999999999999988765 2100  022         6778888888666666666666544 2100    0


Q ss_pred             CCCCCHH------HHHHHHHHHhC---CCcEEEEEeCCCCccccccccc
Q 043249          241 WQGKSFE------ERASDITNTLK---HKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       241 ~~~~~~~------~l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                      ..+.+.-      ..+..+.++++   ++..||++||+..-...+..|.
T Consensus       219 tsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REis  267 (466)
T TIGR01040       219 LANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVS  267 (466)
T ss_pred             CCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHH
Confidence            0111111      12234667776   5999999999966233455443

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=96.13  E-value=0.019  Score=52.96  Aligned_cols=98  Identities=17%  Similarity=0.278  Sum_probs=56.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC-----CCCCCCCHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST-----DSWQGKSFE---  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~-----~~~~~~~~~---  247 (287)
                      .-..++|+|..|+|||||++.+.+..     ..+..+...+.... ....+...+...-+...     ...+.....   
T Consensus       167 ~GqrigI~G~sG~GKSTLl~~I~g~~-----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~  241 (451)
T PRK05688        167 RGQRLGLFAGTGVGKSVLLGMMTRFT-----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLR  241 (451)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHH
Confidence            45678999999999999999887643     23455444555443 34455555544322210     000111111   


Q ss_pred             --HHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+..+.+++  +++..||++||+..-......+
T Consensus       242 a~~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~REi  277 (451)
T PRK05688        242 AAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREI  277 (451)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEecchhHHHHHHHHH
Confidence              1123355655  4899999999997633344444

>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=96.12  E-value=0.036  Score=49.07  Aligned_cols=73  Identities=18%  Similarity=0.364  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHhccC-CCceEEEEEccCCCcHHHHHHHHHHHhcccc--CCC---CEEEEEEecCCCCHHHHHHHHHHHh
Q 043249          161 ESILDQVWRCITEQK-KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE--HDF---DVVIWSVVSREPNLMQIQEDIGKRI  234 (287)
Q Consensus       161 ~~~~~~l~~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~--~~F---~~~~wv~vs~~~~~~~i~~~i~~~~  234 (287)
                      +...+.|.+.+.+.+ ....+|+|.|.=|+||||+.+.+.+.. +..  ..+   ..-+|-+-+.+.-...++.+|..++
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            445667777777653 578999999999999999999999887 333  112   2233444443333445666666554

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 [].

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.12  E-value=0.022  Score=50.65  Aligned_cols=39  Identities=21%  Similarity=0.434  Sum_probs=30.3

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++.+.....+..+|+|.|.+|+|||||+..+....
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345555555434478899999999999999999987766

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.12  E-value=0.016  Score=46.15  Aligned_cols=23  Identities=43%  Similarity=0.573  Sum_probs=20.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|+.|+||||+|+.+-+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            78999999999999999997754

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.

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

Probab=96.12  E-value=0.0047  Score=51.73  Aligned_cols=24  Identities=29%  Similarity=0.554  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            567899999999999999999864

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.12  E-value=0.032  Score=51.88  Aligned_cols=82  Identities=23%  Similarity=0.245  Sum_probs=53.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      .+.-+.+.|++|+|||+||..+..+.     .|..+   .+-   ++++               .-..++......+.+.
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFv---Kii---Spe~---------------miG~sEsaKc~~i~k~  590 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS-----DFPFV---KII---SPED---------------MIGLSESAKCAHIKKI  590 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc-----CCCeE---EEe---ChHH---------------ccCccHHHHHHHHHHH
Confidence            45666788999999999999997754     55432   211   1111               1123444444444444


Q ss_pred             h----CCCcEEEEEeCCCCcccccccccccCCC
Q 043249          257 L----KHKKFVLLSDDIWESEIDLTKLGVPLLT  285 (287)
Q Consensus       257 l----~~kr~LlVLDDvw~~~~~~~~i~~~~p~  285 (287)
                      +    +..--.||+||+.. -.+|-.||+-|.+
T Consensus       591 F~DAYkS~lsiivvDdiEr-LiD~vpIGPRfSN  622 (744)
T KOG0741|consen  591 FEDAYKSPLSIIVVDDIER-LLDYVPIGPRFSN  622 (744)
T ss_pred             HHHhhcCcceEEEEcchhh-hhcccccCchhhH
Confidence            4    46667899999998 8999999887654

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.12  E-value=0.067  Score=43.60  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999876

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.12  E-value=0.014  Score=51.30  Aligned_cols=39  Identities=28%  Similarity=0.405  Sum_probs=29.7

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++.+........+|+|.|.+|+|||||+..+....
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            344555554444478999999999999999999987765

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.12  E-value=0.011  Score=49.16  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|++|+||||+|+.+....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999997765

>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=96.11  E-value=0.011  Score=48.58  Aligned_cols=42  Identities=29%  Similarity=0.312  Sum_probs=30.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ++++|.+..+..+.-....    ..-+.++|.+|+|||+||+.+-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHH
Confidence            3578888888777555543    35788999999999999999864

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.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.11  E-value=0.0078  Score=57.03  Aligned_cols=34  Identities=24%  Similarity=0.410  Sum_probs=26.9

Q ss_pred             HHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          169 RCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       169 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|......+.+|+|.|..|.||||||+.+....
T Consensus        56 qlL~~~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         56 QLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             HHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            3344444467899999999999999999997753

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.08  E-value=0.008  Score=49.78  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=24.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|+++|..|+|||||...+....
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            89999999999999999999998764

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

>TIGR01351 adk adenylate kinases

Probab=96.08  E-value=0.029  Score=46.54  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=19.6

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999997754

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.08  E-value=0.052  Score=50.65  Aligned_cols=26  Identities=31%  Similarity=0.576  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|++++|..|+||||++..+....
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHHH
Confidence            34799999999999999999998765

>PRK14527 adenylate kinase; Provisional

Probab=96.08  E-value=0.0067  Score=49.54  Aligned_cols=26  Identities=23%  Similarity=0.413  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|+|.+|+||||+|+.+....
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999998765

>PRK05922 type III secretion system ATPase; Validated

Probab=96.07  E-value=0.045  Score=50.34  Aligned_cols=98  Identities=13%  Similarity=0.210  Sum_probs=55.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCCC----CCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFSTD----SWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~~----~~~~~~~~----  247 (287)
                      +-..++|+|..|+|||||.+.+.+..     +.+....+.++..- .....+.+..........    ...+.+..    
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~~-----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~  230 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKGS-----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVI  230 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccC-----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHH
Confidence            45668999999999999999997643     23444444444432 233444444433322110    00111111    


Q ss_pred             --HHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+-.+.+++  +++..||++||+..-......+
T Consensus       231 a~~~a~tiAEyfrd~G~~VLl~~DslTR~A~A~REi  266 (434)
T PRK05922        231 AGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEV  266 (434)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence              1223356666  4899999999997633344444

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.06  E-value=0.046  Score=53.78  Aligned_cols=88  Identities=18%  Similarity=0.166  Sum_probs=58.6

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|.+|+|||||+-.+.-..   ...=..++|+.....+++.     .+++++.....   ....+.++....
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~a---~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~  129 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEI  129 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHH
Confidence            356888999999999999997755433   1223567899888877743     66777653211   112344555556


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ ++--|||+|-|-.
T Consensus       130 i~~lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        130 ADMLIRSGALDIVVIDSVAA  149 (790)
T ss_pred             HHHHhhcCCCeEEEEcchhh
Confidence            666665 4667899999864

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.06  E-value=0.0073  Score=49.66  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|.+|+||||+|+.+....
T Consensus         2 ~~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          2 ESTIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998864

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

Probab=96.05  E-value=0.0056  Score=52.15  Aligned_cols=25  Identities=40%  Similarity=0.601  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcc
Confidence            5689999999999999999999863

>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=96.05  E-value=0.02  Score=46.61  Aligned_cols=23  Identities=35%  Similarity=0.642  Sum_probs=21.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998876

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.05  E-value=0.027  Score=52.36  Aligned_cols=92  Identities=23%  Similarity=0.303  Sum_probs=53.8

Q ss_pred             HhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHH
Q 043249          171 ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFE  247 (287)
Q Consensus       171 L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~  247 (287)
                      |..+=..-.++.|.|.+|+|||||+..+.... . + .-..++|++...  +...+... +++++.....   ....+.+
T Consensus        73 LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~-a-~-~g~~vlYvs~Ee--s~~qi~~r-a~rlg~~~~~l~~~~e~~l~  146 (446)
T PRK11823         73 LGGGLVPGSVVLIGGDPGIGKSTLLLQVAARL-A-A-AGGKVLYVSGEE--SASQIKLR-AERLGLPSDNLYLLAETNLE  146 (446)
T ss_pred             hcCCccCCEEEEEECCCCCCHHHHHHHHHHHH-H-h-cCCeEEEEEccc--cHHHHHHH-HHHcCCChhcEEEeCCCCHH
Confidence            43332345799999999999999999987765 2 2 223566776544  34444332 4555542111   1123455


Q ss_pred             HHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          248 ERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       248 ~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .+...+.+   .+.=+||+|.+-.
T Consensus       147 ~i~~~i~~---~~~~lVVIDSIq~  167 (446)
T PRK11823        147 AILATIEE---EKPDLVVIDSIQT  167 (446)
T ss_pred             HHHHHHHh---hCCCEEEEechhh
Confidence            44444432   3556899999854

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.05  E-value=0.0057  Score=47.18  Aligned_cols=45  Identities=20%  Similarity=0.327  Sum_probs=31.8

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ||....++++.+.+..-......|-|.|..|+||+++|+.++...
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            455666666666665422245667899999999999999999976

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.04  E-value=0.0053  Score=47.40  Aligned_cols=23  Identities=48%  Similarity=0.787  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998764

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.04  E-value=0.01  Score=52.87  Aligned_cols=45  Identities=24%  Similarity=0.367  Sum_probs=35.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.++|.+..++.+.-.+...  ...-+-+.|.+|+||||+|+.+-+-
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~--~~~~vLl~G~pG~gKT~lar~la~l   52 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDP--GIGGVLVFGDRGTGKSTAVRALAAL   52 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhcc--CCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            35789999988877555434  3455889999999999999998553

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.03  E-value=0.04  Score=50.55  Aligned_cols=98  Identities=22%  Similarity=0.328  Sum_probs=55.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCCC----CCCCCCH-HH--
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFSTD----SWQGKSF-EE--  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~~----~~~~~~~-~~--  248 (287)
                      +-..++|+|..|+|||||++.+....     +-+....+.+.+.. ...++.++.+..-+....    ...+.+. ..  
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~-----~~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~  213 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT-----DADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQ  213 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC-----CCCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHH
Confidence            45688999999999999999887643     12333334444433 344455555443222100    0011111 11  


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+..+.+++  +++..||++||+..-...+..+
T Consensus       214 a~~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~REi  249 (418)
T TIGR03498       214 AAYTATAIAEYFRDQGKDVLLLMDSVTRFAMAQREI  249 (418)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence               223356666  4899999999997633344444

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

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

Probab=96.03  E-value=0.006  Score=49.31  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|.+|.||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            36799999999999999998875

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=96.03  E-value=0.029  Score=51.03  Aligned_cols=63  Identities=21%  Similarity=0.226  Sum_probs=38.6

Q ss_pred             CCcccchHHHHH-HHHH-HHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          154 DRTIVGQESILD-QVWR-CITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       154 ~~~~vGr~~~~~-~l~~-~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      ++.++|-.+... .+.. +-..++..-..+-|||..|+|||.|++++.+..   ..+......++++.
T Consensus        87 dnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~s  151 (408)
T COG0593          87 DNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLTS  151 (408)
T ss_pred             hheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEeccH
Confidence            344566544332 2222 222233346788999999999999999999976   44444333445443

>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=96.02  E-value=0.0065  Score=44.62  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      .-..++|+|..|+|||||++.+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34688999999999999999975

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

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.02  E-value=0.0071  Score=48.60  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|.|+|+.|+||||+++.+....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3468999999999999999998764

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.01  E-value=0.076  Score=43.12  Aligned_cols=91  Identities=19%  Similarity=0.219  Sum_probs=48.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCC--------CEEEEEEecCCCCHHHHHHHHHHHhCCCC-----------
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF--------DVVIWSVVSREPNLMQIQEDIGKRIGFST-----------  238 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F--------~~~~wv~vs~~~~~~~i~~~i~~~~~~~~-----------  238 (287)
                      -.+.-|+|.+|+||||++..+.... -....|        ..+.|+....+  ...+.+.+........           
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~-~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~~~~~~~~~~~~~~~~~~~  108 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAAL-ATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLRALLQDYDDDANLFFVDLS  108 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHH-HT---TT---------EEEEESSS---HHHHHHHHHHHHTTS-HHHHHHHHHH-
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH-HhCCccCCcccccCceEEEEeccCC--HHHHHHHHHHHhcccCCccceEEeecc
Confidence            3588899999999999999988776 322223        24666665554  4344444333222100           


Q ss_pred             ---------CCCCCCCHHHHHHHHHHHhCC--CcEEEEEeCCCC
Q 043249          239 ---------DSWQGKSFEERASDITNTLKH--KKFVLLSDDIWE  271 (287)
Q Consensus       239 ---------~~~~~~~~~~l~~~l~~~l~~--kr~LlVLDDvw~  271 (287)
                               ............+.+.+.+..  +--++|+|.+.+
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~  152 (193)
T PF13481_consen  109 NWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQS  152 (193)
T ss_dssp             -E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGG
T ss_pred             ccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHH
Confidence                     000011123445566666664  467999998765

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=96.01  E-value=0.063  Score=49.44  Aligned_cols=98  Identities=19%  Similarity=0.252  Sum_probs=56.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      +-..++|+|..|+|||||.+.+.+..     +.+....+.+.... ....+.++.........    ....+.+..    
T Consensus       144 ~Gq~~~I~G~sG~GKStLl~~I~~~~-----~~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~  218 (422)
T TIGR02546       144 EGQRIGIFAGAGVGKSTLLGMIARGA-----SADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLK  218 (422)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhCCC-----CCCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHH
Confidence            55688999999999999999998754     23455555565543 34455544443321110    001111111    


Q ss_pred             --HHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+..+.+++  ++++.|+++|++..-...+..+
T Consensus       219 ~~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a~A~rei  254 (422)
T TIGR02546       219 AAYTATAIAEYFRDQGKRVLLMMDSLTRFARALREI  254 (422)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCchHHHHHHHHH
Confidence              1223355555  3789999999997622334443

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

Probab=96.00  E-value=0.022  Score=50.77  Aligned_cols=64  Identities=17%  Similarity=0.270  Sum_probs=46.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQE  228 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~  228 (287)
                      ..++|.++....+...+..+    +.+-+.|.+|+|||+||+.+....   ..   ...+|....+..+.++.-
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l---~~---~~~~i~~t~~l~p~d~~G   87 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARAL---GL---PFVRIQCTPDLLPSDLLG   87 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHh---CC---CeEEEecCCCCCHHHhcC
Confidence            34789888888877777655    567799999999999999998866   22   345666666666665543

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

Probab=96.00  E-value=0.0062  Score=50.17  Aligned_cols=94  Identities=18%  Similarity=0.188  Sum_probs=57.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE-------------------ecCCC----------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV-------------------VSREP----------------  221 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~-------------------vs~~~----------------  221 (287)
                      +-.|++|+|+.|+|||||.+.+..-. ...   .-.+|+.                   |=|.|                
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE-~~~---~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap  102 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE-EPD---SGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAP  102 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc-CCC---CceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhh
Confidence            56799999999999999999996533 111   1233331                   11222                


Q ss_pred             ---------CHHHHHHHHHHHhCCCCC---CCC-CCCHHHHHHHHHHHhCCCcEEEEEeCCCCcccc
Q 043249          222 ---------NLMQIQEDIGKRIGFSTD---SWQ-GKSFEERASDITNTLKHKKFVLLSDDIWESEID  275 (287)
Q Consensus       222 ---------~~~~i~~~i~~~~~~~~~---~~~-~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~  275 (287)
                               ..++...++++.++..+.   .+. -+.-++..-.|.+.|.-++=++.+|+..+ ..|
T Consensus       103 ~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTS-ALD  168 (240)
T COG1126         103 VKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTS-ALD  168 (240)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcc-cCC
Confidence                     133455566666665321   111 12223344568889998888999999988 554

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

Probab=95.98  E-value=0.011  Score=55.62  Aligned_cols=72  Identities=24%  Similarity=0.240  Sum_probs=46.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      .+.=|-+||++|+|||-||++|.|..   ..+|     ++|-..    +++..           +-..++..+....++.
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~NF-----isVKGP----ELlNk-----------YVGESErAVR~vFqRA  600 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GANF-----ISVKGP----ELLNK-----------YVGESERAVRQVFQRA  600 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cCce-----EeecCH----HHHHH-----------HhhhHHHHHHHHHHHh
Confidence            45667899999999999999999965   5566     333221    22211           1122344444444555


Q ss_pred             hCCCcEEEEEeCCCC
Q 043249          257 LKHKKFVLLSDDIWE  271 (287)
Q Consensus       257 l~~kr~LlVLDDvw~  271 (287)
                      =..-.|+|.+|++..
T Consensus       601 R~saPCVIFFDEiDa  615 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDA  615 (802)
T ss_pred             hcCCCeEEEecchhh
Confidence            557789999998864

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=95.98  E-value=0.0063  Score=46.58  Aligned_cols=26  Identities=35%  Similarity=0.565  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        10 ~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   10 PGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEccCCCccccceeeecccc
Confidence            34689999999999999999987644

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 ....

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.98  E-value=0.0053  Score=48.66  Aligned_cols=22  Identities=27%  Similarity=0.572  Sum_probs=19.4

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|+.|+||||+|+.+-...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998764

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.98  E-value=0.01  Score=56.99  Aligned_cols=47  Identities=21%  Similarity=0.379  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++..+. -..-+-++|+.|+||||+|+.+.+..
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhh
Confidence            458999999999999887662 23457899999999999999997754

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.97  E-value=0.027  Score=51.98  Aligned_cols=102  Identities=15%  Similarity=0.256  Sum_probs=62.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      +-.-++|+|..|+|||||+..+.... . ..+=.+++++-+++... +.++++++...-....    ....+.+...   
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~-~-~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNI-A-KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHH-H-hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            45678999999999999999987654 2 22234777888877543 4556666654311110    0011222211   


Q ss_pred             ---HHHHHHHHh---CCCcEEEEEeCCCCccccccccc
Q 043249          249 ---RASDITNTL---KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       249 ---l~~~l~~~l---~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                         .+-.+.+++   +++..||++||+..-...+.++.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REis  257 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVS  257 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHHH
Confidence               234467777   36899999999976334455543

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=95.96  E-value=0.073  Score=49.62  Aligned_cols=119  Identities=18%  Similarity=0.204  Sum_probs=66.4

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCE---------------EEEEE--
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDV---------------VIWSV--  216 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~---------------~~wv~--  216 (287)
                      +|.+..- .|.+-|.-+-.--.-|++||+.|+|||||.+.+|.+......    |-.+               ..|..  
T Consensus       397 F~y~~~~-~iy~~l~fgid~~srvAlVGPNG~GKsTLlKl~~gdl~p~~G~vs~~~H~~~~~y~Qh~~e~ldl~~s~le~  475 (614)
T KOG0927|consen  397 FGYSDNP-MIYKKLNFGIDLDSRVALVGPNGAGKSTLLKLITGDLQPTIGMVSRHSHNKLPRYNQHLAEQLDLDKSSLEF  475 (614)
T ss_pred             cCCCCcc-hhhhhhhcccCcccceeEecCCCCchhhhHHHHhhccccccccccccccccchhhhhhhHhhcCcchhHHHH
Confidence            3444433 444444433224467899999999999999999987621111    1111               11110  


Q ss_pred             e---cCCCCHHHHHHHHHHHhCCCCC----CCCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCCccccccc
Q 043249          217 V---SREPNLMQIQEDIGKRIGFSTD----SWQGKSFEERASDITNTLK-HKKFVLLSDDIWESEIDLTK  278 (287)
Q Consensus       217 v---s~~~~~~~i~~~i~~~~~~~~~----~~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~~~~~~~~  278 (287)
                      +   -.+-...+..+.|+.+++....    +....+..+....+...+. ...-|||||+-.+ ..+.+.
T Consensus       476 ~~~~~~~~~~~e~~r~ilgrfgLtgd~q~~p~~~LS~Gqr~rVlFa~l~~kqP~lLlLDEPtn-hLDi~t  544 (614)
T KOG0927|consen  476 MMPKFPDEKELEEMRSILGRFGLTGDAQVVPMSQLSDGQRRRVLFARLAVKQPHLLLLDEPTN-HLDIET  544 (614)
T ss_pred             HHHhccccchHHHHHHHHHHhCCCccccccchhhcccccchhHHHHHHHhcCCcEEEecCCCc-CCCchh
Confidence            0   0011355677888888876421    1222333333444444443 7789999999888 555443

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.95  E-value=0.014  Score=55.72  Aligned_cols=48  Identities=19%  Similarity=0.277  Sum_probs=37.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+.|.+..+.|.++.-.......+|.|+|+.|+||||+|+.+....
T Consensus       369 P~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            445677777776666655555567799999999999999999998876

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

Probab=95.94  E-value=0.0069  Score=47.80  Aligned_cols=24  Identities=33%  Similarity=0.560  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+++.|+|.+|+||||+.+.+-..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            589999999999999999887654

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.92  E-value=0.03  Score=51.29  Aligned_cols=98  Identities=21%  Similarity=0.306  Sum_probs=55.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      +-..++|+|..|+|||||++.+.+..     +.+..+.+.+.+... ..++.+.....-....    ....+.+...   
T Consensus       136 ~Gq~~~I~G~sG~GKTtLl~~I~~~~-----~~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~  210 (411)
T TIGR03496       136 RGQRMGIFAGSGVGKSTLLGMMARYT-----EADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLR  210 (411)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhcCC-----CCCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHH
Confidence            45678999999999999999887643     223445556666433 3444444443311100    0011121111   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+-.+.+++  +++..||++||+..-...+..+
T Consensus       211 a~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~REi  246 (411)
T TIGR03496       211 AAFYATAIAEYFRDQGKDVLLLMDSLTRFAMAQREI  246 (411)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHH
Confidence               123345555  4899999999997623334443

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.92  E-value=0.087  Score=46.70  Aligned_cols=26  Identities=31%  Similarity=0.566  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.++|++|+||||++..+....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            57899999999999999999987765

>TIGR01287 nifH nitrogenase iron protein

Probab=95.92  E-value=0.0057  Score=52.97  Aligned_cols=24  Identities=38%  Similarity=0.724  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|+|+|-||+||||++..+....
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            468999999999999998886654

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.

>PLN02200 adenylate kinase family protein

Probab=95.91  E-value=0.0091  Score=50.50  Aligned_cols=26  Identities=27%  Similarity=0.263  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+|.|.|++|+||||+|+.+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999997755

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

Probab=95.91  E-value=0.0087  Score=45.33  Aligned_cols=27  Identities=37%  Similarity=0.570  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHHhccccCCCC
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFD  210 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~~~v~~~F~  210 (287)
                      +-|+|.+|+||||+|+.+....   ...|.
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            5689999999999999998865   55664

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.

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

Probab=95.90  E-value=0.014  Score=57.12  Aligned_cols=45  Identities=22%  Similarity=0.547  Sum_probs=37.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.++||+++++++++.|....++.+|  .+|.+|||||.++.-+...
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~r  214 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQR  214 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHH
Confidence            45799999999999999877555555  6899999999987766654

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.88  E-value=0.0069  Score=48.05  Aligned_cols=21  Identities=33%  Similarity=0.468  Sum_probs=17.2

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |+|.|..|+|||||++.+...
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            789999999999999999764

>PRK13948 shikimate kinase; Provisional

Probab=95.88  E-value=0.01  Score=48.13  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.++||.|+||||+++.+....
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45788999999999999999998765

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

Probab=95.87  E-value=0.019  Score=47.85  Aligned_cols=53  Identities=26%  Similarity=0.266  Sum_probs=32.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhcc----ccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCS----EEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~----v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      +..|.|++|.||||++..+......    ....-...+-++...+..+..++..+.+
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    1133445555555555567777777776

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.87  E-value=0.097  Score=46.68  Aligned_cols=98  Identities=17%  Similarity=0.230  Sum_probs=58.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHh----CCCC-------CCCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRI----GFST-------DSWQGK  244 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~----~~~~-------~~~~~~  244 (287)
                      +-..++|.|..|+|||+|++.+.+..     +-++++++-+.+..+ +.++++++-+..    +.+.       ....++
T Consensus       156 kGqr~~I~G~~G~GKT~L~~~Iak~~-----~~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~  230 (369)
T cd01134         156 KGGTAAIPGPFGCGKTVIQQSLSKYS-----NSDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNM  230 (369)
T ss_pred             CCCEEEEECCCCCChHHHHHHHHhCC-----CCCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCC
Confidence            45688999999999999999987753     445788888877543 344555543211    1100       001222


Q ss_pred             CHHHH------HHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          245 SFEER------ASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       245 ~~~~l------~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      .....      .-.+.+++  .++..|+++|++..-.....+|
T Consensus       231 p~~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REI  273 (369)
T cd01134         231 PVAAREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREI  273 (369)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHH
Confidence            22111      12345555  3899999999985413334433

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=95.83  E-value=0.05  Score=50.47  Aligned_cols=103  Identities=9%  Similarity=0.096  Sum_probs=61.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCC--EEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH--
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD--VVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE--  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~--~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~--  247 (287)
                      +-.-++|+|-.|+|||||+..+.+.. .....+.  .++++.+++..+ +.++.+++...-....    ....+.+.-  
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~-~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R  218 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQA-TVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVER  218 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhh-cccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHH
Confidence            45678999999999999999988865 3221121  667777877543 4456666654321110    000111111  


Q ss_pred             ----HHHHHHHHHhC---CCcEEEEEeCCCCccccccccc
Q 043249          248 ----ERASDITNTLK---HKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       248 ----~l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                          ..+..+.++++   +++.||++||+..-...+.+|+
T Consensus       219 ~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIs  258 (458)
T TIGR01041       219 IVTPRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREIS  258 (458)
T ss_pred             HHHHHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHH
Confidence                12234677776   7889999999976334455553

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.83  E-value=0.0087  Score=48.31  Aligned_cols=24  Identities=25%  Similarity=0.373  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|+|..|+|||||++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            588999999999999999999865

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

Probab=95.82  E-value=0.0078  Score=44.73  Aligned_cols=21  Identities=29%  Similarity=0.629  Sum_probs=19.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |+|+|+.|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

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

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

Probab=95.82  E-value=0.0088  Score=47.89  Aligned_cols=22  Identities=50%  Similarity=0.670  Sum_probs=19.2

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|.+|+|||||++.+.+..
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            6799999999999999998876

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.

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=95.82  E-value=0.033  Score=51.05  Aligned_cols=98  Identities=15%  Similarity=0.244  Sum_probs=55.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC----CCCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST----DSWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~----~~~~~~~~~----  247 (287)
                      +-..++|+|..|+|||||++.+.+..     +-+..+...+.+.. ...++..+.+.+-+...    ....+.+..    
T Consensus       136 ~Gqri~I~G~sG~GKTtLl~~i~~~~-----~~~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~  210 (413)
T TIGR03497       136 KGQRVGIFAGSGVGKSTLLGMIARNA-----KADINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLK  210 (413)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC-----CCCeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHH
Confidence            56789999999999999999887643     22333334455443 23344444443311110    000112111    


Q ss_pred             --HHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+..+.+++  +++..||++||+..-...+..+
T Consensus       211 ~~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~rEi  246 (413)
T TIGR03497       211 AAFTATAIAEYFRDQGKDVLLMMDSVTRFAMAQREI  246 (413)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcCcHHHHHHHHHH
Confidence              1223455665  3899999999997633345544

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

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

Probab=95.82  E-value=0.01  Score=46.96  Aligned_cols=25  Identities=36%  Similarity=0.602  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|++|+|+-|+|||||...+....
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L   26 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKL   26 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHH
Confidence            4799999999999999999997766

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.81  E-value=0.044  Score=50.45  Aligned_cols=99  Identities=11%  Similarity=0.139  Sum_probs=54.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH-HHHHHHHHHH-hCCCC--CCCCCCCHH-----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL-MQIQEDIGKR-IGFST--DSWQGKSFE-----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~-~~i~~~i~~~-~~~~~--~~~~~~~~~-----  247 (287)
                      +-..++|+|..|+|||||++.+....     +-+..+...+++.... .+..+..+.. +....  ....+.+..     
T Consensus       156 ~Gq~~~i~G~sG~GKStLl~~i~~~~-----~~~v~vi~~iGergrev~e~~~~~l~~~l~~tvvV~atsddsp~~R~~~  230 (434)
T PRK08472        156 KGQKLGIFAGSGVGKSTLMGMIVKGC-----LAPIKVVALIGERGREIPEFIEKNLGGDLENTVIVVATSDDSPLMRKYG  230 (434)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc-----CCCEEEEEeeCccchhHHHHHHHHhcCcccceEEEEECCCCCHHHhhHH
Confidence            55788999999999999999998643     2345555556555443 2332322211 00000  000111111     


Q ss_pred             -HHHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          248 -ERASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       248 -~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                       ..+..+.+++  +++..||++||+..-...+..|+
T Consensus       231 ~~~a~~iAEyFrd~G~~Vll~~DslTr~A~A~REi~  266 (434)
T PRK08472        231 AFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIG  266 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHH
Confidence             1123355555  48999999999976333455553

>PRK13946 shikimate kinase; Provisional

Probab=95.80  E-value=0.0098  Score=48.32  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.|.++|+.|+||||+++.+....
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999998865

>PRK06820 type III secretion system ATPase; Validated

Probab=95.80  E-value=0.005  Score=56.60  Aligned_cols=98  Identities=18%  Similarity=0.288  Sum_probs=53.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      +-..++|+|..|+|||||++.+....     +-+..+...+.+... ...+.+..+..-....    ....+.+.-.   
T Consensus       162 ~Gqri~I~G~sG~GKStLl~~I~~~~-----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~  236 (440)
T PRK06820        162 EGQRIGIFAAAGVGKSTLLGMLCADS-----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLK  236 (440)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhccC-----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHH
Confidence            45678999999999999999887643     334555566666522 2222222221100000    0011111111   


Q ss_pred             ---HHHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          249 ---RASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 ---l~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         .+..+.++++  ++..||++||+..-.....+|
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REi  272 (440)
T PRK06820        237 GLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREI  272 (440)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccchhHHHHHHHHH
Confidence               2234555554  899999999997633344444

>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=95.79  E-value=0.078  Score=45.53  Aligned_cols=78  Identities=17%  Similarity=0.152  Sum_probs=42.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC--CCCHHHHHHHHHHHh----CCCCCCCCCCCHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR--EPNLMQIQEDIGKRI----GFSTDSWQGKSFEERASDI  253 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~--~~~~~~i~~~i~~~~----~~~~~~~~~~~~~~l~~~l  253 (287)
                      +|+|.|..|+||||+++.+.... .....  ..+.++-..  .++-...-+.+....    +...-+....+.+.+.+.+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l-~~~g~--~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF-AREGI--HPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-HhcCC--ceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            58999999999999999988765 22111  122222111  122222222222221    1111113456677777777


Q ss_pred             HHHhCCC
Q 043249          254 TNTLKHK  260 (287)
Q Consensus       254 ~~~l~~k  260 (287)
                      +.+.+++
T Consensus        78 ~~L~~g~   84 (277)
T cd02029          78 RTYGETG   84 (277)
T ss_pred             HHHHcCC
Confidence            7776654

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.

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

Probab=95.78  E-value=0.0067  Score=50.36  Aligned_cols=24  Identities=42%  Similarity=0.512  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-|.|+|++|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            457899999999999999998765

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.78  E-value=0.083  Score=49.72  Aligned_cols=99  Identities=16%  Similarity=0.149  Sum_probs=61.9

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC-------
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD-------  239 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~-------  239 (287)
                      +=++|..+=..-+++-|.|.+|+|||||+..+.....   .+=+.+++++..+  +..++.+.+ ++++....       
T Consensus       252 lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~  325 (484)
T TIGR02655       252 LDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENAC---ANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGL  325 (484)
T ss_pred             HHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCc
Confidence            3333444334668999999999999999999876541   2234556655544  566776664 55553211       


Q ss_pred             ------CCCCCCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          240 ------SWQGKSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       240 ------~~~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                            .....+.+.....+.+.+.. +.-++|+|.+-.
T Consensus       326 l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~~  364 (484)
T TIGR02655       326 LKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLSA  364 (484)
T ss_pred             EEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence                  11223446667777777753 556789999864

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.78  E-value=0.11  Score=49.49  Aligned_cols=52  Identities=27%  Similarity=0.310  Sum_probs=36.1

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCC
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF  209 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F  209 (287)
                      +++=|.++-+.+|-+...-+           -...+=|-.+|++|+||||+|+++.+..   +..|
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF  496 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNF  496 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCe
Confidence            34345776666665444321           1356677899999999999999999965   5555

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

Probab=95.76  E-value=0.022  Score=52.26  Aligned_cols=49  Identities=24%  Similarity=0.297  Sum_probs=36.1

Q ss_pred             CCcccchHHHHHHHHHHHhc-------c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITE-------Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~-------~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+...+..       .       ......+.++|++|+|||+||+.+....
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            45689999988877554421       1       0123568899999999999999998754

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=95.75  E-value=0.12  Score=43.80  Aligned_cols=89  Identities=21%  Similarity=0.295  Sum_probs=56.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC-CCCHHHHHHHHHHHhCCCCCCCC-CCCHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR-EPNLMQIQEDIGKRIGFSTDSWQ-GKSFEERASDIT  254 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~-~~~~~~i~~~i~~~~~~~~~~~~-~~~~~~l~~~l~  254 (287)
                      +.+++.++|.-|.|||++.|+..... .    =+-++-|.++. ..+...+...|+..+.... ... .....+....|.
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~-~----~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p-~~~~~~~~e~~~~~L~  123 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASL-N----EDQVAVVVIDKPTLSDATLLEAIVADLESQP-KVNVNAVLEQIDRELA  123 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhc-C----CCceEEEEecCcchhHHHHHHHHHHHhccCc-cchhHHHHHHHHHHHH
Confidence            56799999999999999999655443 1    11122255544 4667788999998887621 111 112333444455


Q ss_pred             HHhC-CCc-EEEEEeCCCC
Q 043249          255 NTLK-HKK-FVLLSDDIWE  271 (287)
Q Consensus       255 ~~l~-~kr-~LlVLDDvw~  271 (287)
                      ...+ ++| ..++.||...
T Consensus       124 al~~~g~r~v~l~vdEah~  142 (269)
T COG3267         124 ALVKKGKRPVVLMVDEAHD  142 (269)
T ss_pred             HHHHhCCCCeEEeehhHhh
Confidence            4443 677 8999998755

>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=95.75  E-value=0.016  Score=45.27  Aligned_cols=20  Identities=30%  Similarity=0.557  Sum_probs=18.6

Q ss_pred             EEccCCCcHHHHHHHHHHHh
Q 043249          183 LYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       183 I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+|++|+||||+|+.+....
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            78999999999999998876

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 ....

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.74  E-value=0.0081  Score=47.10  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.++|.+|+|||||+..+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999997643

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

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.74  E-value=0.021  Score=53.85  Aligned_cols=55  Identities=25%  Similarity=0.410  Sum_probs=41.0

Q ss_pred             ccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE
Q 043249          157 IVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV  216 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~  216 (287)
                      +.--..-++++-.||...   ....+++.+.|++|+||||.++.+.+..     .|+.+-|.+
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            333455677777787653   2345799999999999999999998865     577777864

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=95.72  E-value=0.046  Score=47.20  Aligned_cols=104  Identities=11%  Similarity=0.117  Sum_probs=70.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE-EecCCCCHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS-VVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv-~vs~~~~~~~i~~~i~~~  233 (287)
                      +.++|.... .++..++......-+...++|+.|+|||+-++.+.+..        +.+|. ..+..++...++..|+..
T Consensus        72 ~~~l~tkt~-r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~--------p~~~l~~~~p~~~a~~~i~~i~~~  142 (297)
T COG2842          72 PDFLETKTV-RRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN--------PNALLIEADPSYTALVLILIICAA  142 (297)
T ss_pred             ccccccchh-HhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC--------ccceeecCChhhHHHHHHHHHHHH
Confidence            445655433 23344444333344588899999999999999998865        44555 677778888887777776


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          234 IGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       234 ~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ....    ...........+...+.+..-+|+.|+-..
T Consensus       143 ~~~~----~~~~~~d~~~~~~~~l~~~~~~iivDEA~~  176 (297)
T COG2842         143 AFGA----TDGTINDLTERLMIRLRDTVRLIIVDEADR  176 (297)
T ss_pred             Hhcc----cchhHHHHHHHHHHHHccCcceeeeehhhc
Confidence            5542    233455566667777788888888888765

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

Probab=95.70  E-value=0.0086  Score=49.76  Aligned_cols=24  Identities=38%  Similarity=0.711  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|.|-||+||||++..+..-.
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            479999999999999888876554

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

>PLN02796 D-glycerate 3-kinase

Probab=95.69  E-value=0.012  Score=52.41  Aligned_cols=26  Identities=35%  Similarity=0.401  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+-+|+|.|..|+|||||++.+....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            56789999999999999999998876

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.69  E-value=0.0094  Score=49.64  Aligned_cols=25  Identities=28%  Similarity=0.498  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

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.

>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=95.68  E-value=0.017  Score=49.00  Aligned_cols=20  Identities=35%  Similarity=0.504  Sum_probs=18.2

Q ss_pred             EEccCCCcHHHHHHHHHHHh
Q 043249          183 LYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       183 I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+||+|+||||+++.+.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999987

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

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=95.68  E-value=0.017  Score=57.41  Aligned_cols=46  Identities=17%  Similarity=0.273  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.|.+++..+  ++ +.+-++|..|+||||+|+.+.+..
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~--ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSG--RINHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999998876  44 457899999999999999997765

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

Probab=95.68  E-value=0.012  Score=46.71  Aligned_cols=24  Identities=42%  Similarity=0.699  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|+|..|+|||||+..+....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l   25 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPAL   25 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999876

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.67  E-value=0.021  Score=51.24  Aligned_cols=47  Identities=26%  Similarity=0.292  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|-+...+.+...+..+. -..-+-|+|..|+||||+|..+....
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~L   69 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHI   69 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHH
Confidence            468999999999999887662 33468899999999999999988765

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.67  E-value=0.044  Score=48.19  Aligned_cols=113  Identities=16%  Similarity=0.231  Sum_probs=68.5

Q ss_pred             CcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHH-HHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQ-IQEDIG  231 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~-i~~~i~  231 (287)
                      ..++|-.++..++-++|...  ...-.-+.|+|+.|.|||+|.-.+..+..+..++|   .-|......-..+ .+++|.
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            45789888888888887643  22445567999999999999999888743444554   4455555443322 466666


Q ss_pred             HHhCCCCC--CCCCCCHHHHHHHHHHHhC------CCcEEEEEeCCC
Q 043249          232 KRIGFSTD--SWQGKSFEERASDITNTLK------HKKFVLLSDDIW  270 (287)
Q Consensus       232 ~~~~~~~~--~~~~~~~~~l~~~l~~~l~------~kr~LlVLDDvw  270 (287)
                      .++.....  .....+..+....|-..|+      +-+.+.|+|+..
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfD  147 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFD  147 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhh
Confidence            66543211  1112233334445555554      235777777764

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.66  E-value=0.012  Score=47.99  Aligned_cols=26  Identities=15%  Similarity=0.324  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            56789999999999999999997753

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.66  E-value=0.018  Score=51.32  Aligned_cols=48  Identities=13%  Similarity=0.205  Sum_probs=38.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|....+.++.+.+..-.....-|-|+|..|+||+++|+.++...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            357899888888888776533344567899999999999999998754

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.66  E-value=0.0078  Score=49.22  Aligned_cols=23  Identities=39%  Similarity=0.580  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|-+.|.+|+||||+|+.+..-.
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHH
Confidence            46678999999999999987765

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.65  E-value=0.024  Score=50.85  Aligned_cols=89  Identities=16%  Similarity=0.181  Sum_probs=51.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTL  257 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l  257 (287)
                      ...|.|.|..|+||||+++.+.+..   ..+...+++. +.+.  .+-.......-+.....+...   ......++..|
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~t-iEdp--~E~~~~~~~~~i~q~evg~~~---~~~~~~l~~~l  192 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIIT-IEDP--IEYVHRNKRSLINQREVGLDT---LSFANALRAAL  192 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEE-EcCC--hhhhccCccceEEccccCCCC---cCHHHHHHHhh
Confidence            4789999999999999999988754   3344445443 2221  111110000000000001111   23455678888


Q ss_pred             CCCcEEEEEeCCCCccccc
Q 043249          258 KHKKFVLLSDDIWESEIDL  276 (287)
Q Consensus       258 ~~kr~LlVLDDvw~~~~~~  276 (287)
                      +...=.|++|++.+ ...+
T Consensus       193 r~~pd~i~vgEird-~~~~  210 (343)
T TIGR01420       193 REDPDVILIGEMRD-LETV  210 (343)
T ss_pred             ccCCCEEEEeCCCC-HHHH
Confidence            88888999999987 5543

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

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

Probab=95.65  E-value=0.01  Score=49.20  Aligned_cols=25  Identities=32%  Similarity=0.507  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999999764

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.

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

Probab=95.65  E-value=0.01  Score=45.90  Aligned_cols=24  Identities=42%  Similarity=0.444  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-|-++|..|+|||||++.+....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            357799999999999999997754

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

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.63  E-value=0.017  Score=53.37  Aligned_cols=98  Identities=14%  Similarity=0.240  Sum_probs=52.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC----CCCCCCCH-----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST----DSWQGKSF-----  246 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~----~~~~~~~~-----  246 (287)
                      +-..++|+|..|+|||||++.+.+.. .    -+.....-+.+.. +..++..+.+..-....    -...+.+.     
T Consensus       157 ~Gq~i~I~G~sG~GKStLl~~I~~~~-~----~~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~  231 (438)
T PRK07721        157 KGQRVGIFAGSGVGKSTLMGMIARNT-S----ADLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIK  231 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccc-C----CCeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHH
Confidence            56789999999999999999887754 2    1232223333332 23333333222110000    00011111     


Q ss_pred             -HHHHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          247 -EERASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       247 -~~l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                       ...+-.+.+++  +++..||++||+..-.....+|
T Consensus       232 ~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEi  267 (438)
T PRK07721        232 GAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREI  267 (438)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHH
Confidence             11223355665  4899999999997633344444

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

Probab=95.62  E-value=0.012  Score=50.92  Aligned_cols=24  Identities=25%  Similarity=0.582  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+|.+|+|||||+..+....
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L   25 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRL   25 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999887

>PRK08356 hypothetical protein; Provisional

Probab=95.61  E-value=0.011  Score=48.52  Aligned_cols=21  Identities=38%  Similarity=0.449  Sum_probs=19.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v  198 (287)
                      ..+|.|+|++|+||||+|+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHH
Confidence            357899999999999999999

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.61  E-value=0.039  Score=53.73  Aligned_cols=47  Identities=23%  Similarity=0.281  Sum_probs=31.2

Q ss_pred             cccchHHHHHHHHH---HHhccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWR---CITEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~---~L~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.|.+...+++.+   ++....       .-.+-+.++|++|+||||+|+.+.+..
T Consensus       153 di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~  209 (644)
T PRK10733        153 DVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA  209 (644)
T ss_pred             HHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            35676655555444   333211       123348899999999999999998865

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.61  E-value=0.15  Score=43.88  Aligned_cols=52  Identities=17%  Similarity=0.123  Sum_probs=35.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      .-.++.|.|.+|+||||++..+.... - ..+=..++|++...  +...+.+.+..
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~-~-~~~g~~vl~iS~E~--~~~~~~~r~~~   80 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDL-I-TQHGVRVGTISLEE--PVVRTARRLLG   80 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-H-HhcCceEEEEEccc--CHHHHHHHHHH
Confidence            44688899999999999999886654 1 22224577877655  34555555544

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=95.61  E-value=0.0095  Score=51.73  Aligned_cols=24  Identities=33%  Similarity=0.617  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+|-||+||||++-.+..-.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            578999999999999998876554

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.61  E-value=0.026  Score=50.45  Aligned_cols=47  Identities=21%  Similarity=0.215  Sum_probs=33.8

Q ss_pred             cccchHHHHHHHHHHHhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.|.++.++-|.+...-+          -..++=|..+|++|.|||-||++|+...
T Consensus       213 DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  213 DIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             hhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            3556666665555543211          2357788899999999999999999976

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.61  E-value=0.045  Score=50.52  Aligned_cols=98  Identities=16%  Similarity=0.238  Sum_probs=55.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCCC----CCCCCCHH----
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFSTD----SWQGKSFE----  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~~----~~~~~~~~----  247 (287)
                      +-..++|+|..|+|||||++.+.... .    -+..+.+.+.+.. ...++.+.+...-+....    ...+.+.-    
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~-~----~d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~  236 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARGT-Q----CDVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAK  236 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC-C----CCeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHH
Confidence            56788999999999999999997654 1    2334444455432 344444555443221100    00111111    


Q ss_pred             --HHHHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          248 --ERASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 --~l~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                        ..+-.+.++++  ++..||++||+..-......|
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~DslTr~A~A~REi  272 (441)
T PRK09099        237 AAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREI  272 (441)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence              12233555653  899999999997622334443

>TIGR00416 sms DNA repair protein RadA

Probab=95.60  E-value=0.049  Score=50.72  Aligned_cols=94  Identities=23%  Similarity=0.319  Sum_probs=52.9

Q ss_pred             HHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCC
Q 043249          169 RCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKS  245 (287)
Q Consensus       169 ~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~  245 (287)
                      +.|..+=..-.++.|.|.+|+|||||+..+.... . +.. ..++|++...  +...+... +.+++.....   ....+
T Consensus        85 ~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~-a-~~g-~kvlYvs~EE--s~~qi~~r-a~rlg~~~~~l~~~~e~~  158 (454)
T TIGR00416        85 RVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQL-A-KNQ-MKVLYVSGEE--SLQQIKMR-AIRLGLPEPNLYVLSETN  158 (454)
T ss_pred             HHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHH-H-hcC-CcEEEEECcC--CHHHHHHH-HHHcCCChHHeEEcCCCC
Confidence            3344333356899999999999999999986654 1 111 2466766543  34443322 2344432111   12234


Q ss_pred             HHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          246 FEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       246 ~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .+.+...+.+   .+.=++|+|.+-.
T Consensus       159 ~~~I~~~i~~---~~~~~vVIDSIq~  181 (454)
T TIGR00416       159 WEQICANIEE---ENPQACVIDSIQT  181 (454)
T ss_pred             HHHHHHHHHh---cCCcEEEEecchh
Confidence            4444444432   3556899998854

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK14532 adenylate kinase; Provisional

Probab=95.60  E-value=0.011  Score=48.02  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=19.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999997754

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.59  E-value=0.013  Score=46.87  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|.|+|+.|+||||+++.+-...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999998765

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.59  E-value=0.012  Score=47.87  Aligned_cols=25  Identities=36%  Similarity=0.630  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999764

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.59  E-value=0.01  Score=50.59  Aligned_cols=22  Identities=41%  Similarity=0.685  Sum_probs=20.1

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|++|+||||+|+.+....
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998766

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.58  E-value=0.026  Score=46.32  Aligned_cols=36  Identities=33%  Similarity=0.457  Sum_probs=27.0

Q ss_pred             HHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          165 DQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       165 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+..+..+  +-++..|.|.+|+||||+++.+....
T Consensus         7 ~~a~~~~l~~--~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    7 REAVRAILTS--GDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHHHC--TCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            3444444444  44678889999999999999988766

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

Probab=95.58  E-value=0.012  Score=47.99  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998764

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

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.57  E-value=0.011  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-..++|+|+.|+|||||...+..
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            457899999999999999999874

>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=95.57  E-value=0.024  Score=46.80  Aligned_cols=53  Identities=21%  Similarity=0.282  Sum_probs=35.3

Q ss_pred             chHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE
Q 043249          159 GQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV  216 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~  216 (287)
                      .+...-...++.|.    +..++.+.|+.|+|||.||-...-+. -...+|+..+++.
T Consensus         4 p~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEe
Confidence            34455566677776    34688999999999999999887665 3347888887774

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PLN02348 phosphoribulokinase

Probab=95.57  E-value=0.02  Score=51.69  Aligned_cols=27  Identities=30%  Similarity=0.597  Sum_probs=24.6

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-+|+|.|..|+||||+|+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998876

>PRK06761 hypothetical protein; Provisional

Probab=95.57  E-value=0.03  Score=48.56  Aligned_cols=24  Identities=33%  Similarity=0.527  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|.|.+|+||||+++.+....
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999876

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.57  E-value=0.01  Score=51.41  Aligned_cols=24  Identities=38%  Similarity=0.717  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+|-||+||||++..+..-.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            578999999999999998876544

>PF13245 AAA_19: Part of AAA domain

Probab=95.56  E-value=0.035  Score=38.13  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=17.2

Q ss_pred             ceEEEEEccCCCcHHH-HHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTT-LLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTt-La~~v~~~  201 (287)
                      .++..|.|.+|.|||+ ++..+..-
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4567789999999994 44444443

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

Probab=95.54  E-value=0.013  Score=48.83  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

>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=95.54  E-value=0.037  Score=44.66  Aligned_cols=44  Identities=20%  Similarity=0.161  Sum_probs=29.8

Q ss_pred             EEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQED  229 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~  229 (287)
                      +.|.|.+|+|||+|+..+.....  +.. ..++|++...  +...+.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~--~~g-~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL--ARG-EPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH--HCC-CcEEEEECCC--CHHHHHHH
Confidence            57899999999999998766541  222 3466777654  45555544

A related protein is found in archaea.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=95.53  E-value=0.12  Score=47.51  Aligned_cols=90  Identities=19%  Similarity=0.305  Sum_probs=52.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC-CCHHHHHHHHHHHhCCCCC----CCCCCCH--H--
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE-PNLMQIQEDIGKRIGFSTD----SWQGKSF--E--  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-~~~~~i~~~i~~~~~~~~~----~~~~~~~--~--  247 (287)
                      .-..++|+|..|+|||||++.+.... +    -+......+.+. ....++++..+..-+....    ...+.+.  .  
T Consensus       155 ~Gqri~I~G~sG~GKTtLl~~Ia~~~-~----~~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~r  229 (432)
T PRK06793        155 IGQKIGIFAGSGVGKSTLLGMIAKNA-K----ADINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLR  229 (432)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccC-C----CCeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHH
Confidence            55688999999999999999998754 2    122222334443 4555666655554322100    0011111  1  


Q ss_pred             --HHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          248 --ERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       248 --~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                        ..+..+.++++  ++..||++||+..
T Consensus       230 a~~~a~~iAEyfr~~G~~VLlilDslTr  257 (432)
T PRK06793        230 AAKLATSIAEYFRDQGNNVLLMMDSVTR  257 (432)
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEecchHH
Confidence              12233445553  8999999999977

>cd01862 Rab7 Rab7 subfamily

Probab=95.53  E-value=0.0099  Score=47.08  Aligned_cols=22  Identities=41%  Similarity=0.619  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998765

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-

>PRK01184 hypothetical protein; Provisional

Probab=95.52  E-value=0.012  Score=47.72  Aligned_cols=19  Identities=47%  Similarity=0.669  Sum_probs=17.0

Q ss_pred             eEEEEEccCCCcHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQ  197 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~  197 (287)
                      .+|.|+|++|+||||+++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~~   20 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSKI   20 (184)
T ss_pred             cEEEEECCCCCCHHHHHHH
Confidence            4789999999999999973

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

Probab=95.52  E-value=0.013  Score=41.48  Aligned_cols=23  Identities=39%  Similarity=0.665  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.+.|.+|+||||++..+....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999998876

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

>cd04155 Arl3 Arl3 subfamily

Probab=95.52  E-value=0.01  Score=47.14  Aligned_cols=25  Identities=36%  Similarity=0.539  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +..-|+|+|..|+|||||.+.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            3455899999999999999999875

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.

>PRK13236 nitrogenase reductase; Reviewed

Probab=95.52  E-value=0.013  Score=51.50  Aligned_cols=27  Identities=37%  Similarity=0.575  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.+||++.|-|||||||++-.+..-.
T Consensus         4 ~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          4 ENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             cCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            367999999999999999888865544

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=95.51  E-value=0.024  Score=52.78  Aligned_cols=46  Identities=22%  Similarity=0.347  Sum_probs=38.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+.+++..+  .+ +.+-++|..|+||||+|+.+.+..
T Consensus        17 ~diiGq~~~v~~L~~~i~~~--~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFN--RAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46899999999999888765  44 567789999999999999987754

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=95.51  E-value=0.029  Score=48.66  Aligned_cols=62  Identities=19%  Similarity=0.214  Sum_probs=49.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEE-EEecC
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIW-SVVSR  219 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~w-v~vs~  219 (287)
                      ..++|.+..+.-+.+.+...  ...+.-.+|++|.|||+-|....... --.+.|.|++- .++|.
T Consensus        36 de~~gQe~vV~~L~~a~~~~--~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSd   98 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRR--ILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASD   98 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhc--CCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccc
Confidence            45789999999999988874  78889999999999999999888766 44566877654 24444

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.51  E-value=0.13  Score=48.75  Aligned_cols=89  Identities=16%  Similarity=0.143  Sum_probs=56.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC-------------CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST-------------DSWQG  243 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~-------------~~~~~  243 (287)
                      .-.++.|.|.+|+|||+|+..+....   ...-+.++|++....  +..+.+.+ .+++..-             .....
T Consensus       272 ~g~~~li~G~~G~GKT~l~~~~~~~~---~~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~  345 (509)
T PRK09302        272 RGSIILVSGATGTGKTLLASKFAEAA---CRRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPES  345 (509)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCccc
Confidence            56788999999999999999987654   223457788877654  55555544 3444210             01112


Q ss_pred             CCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          244 KSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       244 ~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                      .+.++....+.+.+.. +.-++|+|.+-.
T Consensus       346 ~~~~~~~~~i~~~i~~~~~~~vVIDslt~  374 (509)
T PRK09302        346 YGLEDHLIIIKREIEEFKPSRVAIDPLSA  374 (509)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            3445556666666543 445799999853

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

Probab=95.50  E-value=0.011  Score=47.69  Aligned_cols=21  Identities=48%  Similarity=0.629  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +|+|.|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999865

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

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=95.50  E-value=0.2  Score=48.18  Aligned_cols=112  Identities=12%  Similarity=0.172  Sum_probs=73.9

Q ss_pred             CcccchHHHHHHHHHHHhc---cCCCceEEEEEccCCCcHHHHHHHHHHHhcc--ccCCCCEEEEEEecC--CCCHHHHH
Q 043249          155 RTIVGQESILDQVWRCITE---QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCS--EEHDFDVVIWSVVSR--EPNLMQIQ  227 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~--v~~~F~~~~wv~vs~--~~~~~~i~  227 (287)
                      ..+-+|+.+..+|-..+..   +....+.+-|-|.+|+|||..+..|.+....  .+..-....+|.+..  =..+.++.
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y  475 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIY  475 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHH
Confidence            3467899999999888753   2223447889999999999999999885410  112222223344433  34588999


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCC
Q 043249          228 EDIGKRIGFSTDSWQGKSFEERASDITNTLK-----HKKFVLLSDDIWE  271 (287)
Q Consensus       228 ~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~-----~kr~LlVLDDvw~  271 (287)
                      ..|...+....     .....-.+.|..++.     .+.++|++|++..
T Consensus       476 ~~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~  519 (767)
T KOG1514|consen  476 EKIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDI  519 (767)
T ss_pred             HHHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHH
Confidence            99999988732     233344455666554     4579999998743

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.49  E-value=0.013  Score=46.16  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3689999999999999998764

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

>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=95.49  E-value=0.013  Score=48.62  Aligned_cols=24  Identities=33%  Similarity=0.728  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      . .+++|+|..|.|||||++.+..-
T Consensus        23 ~-e~~~i~G~nGsGKSTLl~~l~G~   46 (214)
T cd03297          23 E-EVTGIFGASGAGKSTLLRCIAGL   46 (214)
T ss_pred             c-eeEEEECCCCCCHHHHHHHHhCC
Confidence            6 89999999999999999999764

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.

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

Probab=95.48  E-value=0.011  Score=50.85  Aligned_cols=24  Identities=38%  Similarity=0.722  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|.|-||+||||++..+..-.
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            578889999999999998876655

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.46  E-value=0.084  Score=45.51  Aligned_cols=99  Identities=20%  Similarity=0.255  Sum_probs=52.7

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC--CCHHHHHHHHHHHhC
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE--PNLMQIQEDIGKRIG  235 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~--~~~~~i~~~i~~~~~  235 (287)
                      .|......+.+..+...  .-.++.|.|..|.||||+++.+.+..   .. ....+ +.+...  +....    + .++.
T Consensus        62 lg~~~~~~~~l~~~~~~--~~GlilisG~tGSGKTT~l~all~~i---~~-~~~~i-itiEdp~E~~~~~----~-~q~~  129 (264)
T cd01129          62 LGLKPENLEIFRKLLEK--PHGIILVTGPTGSGKTTTLYSALSEL---NT-PEKNI-ITVEDPVEYQIPG----I-NQVQ  129 (264)
T ss_pred             cCCCHHHHHHHHHHHhc--CCCEEEEECCCCCcHHHHHHHHHhhh---CC-CCCeE-EEECCCceecCCC----c-eEEE
Confidence            45444444444444433  35689999999999999999886643   11 11111 222221  11111    0 1111


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCccc
Q 043249          236 FSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWESEI  274 (287)
Q Consensus       236 ~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~  274 (287)
                      ...  ....   .....++..|+...=.|+++++.+ .+
T Consensus       130 v~~--~~~~---~~~~~l~~~lR~~PD~i~vgEiR~-~e  162 (264)
T cd01129         130 VNE--KAGL---TFARGLRAILRQDPDIIMVGEIRD-AE  162 (264)
T ss_pred             eCC--cCCc---CHHHHHHHHhccCCCEEEeccCCC-HH
Confidence            100  0111   244557777787777888888888 44

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.

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

Probab=95.46  E-value=0.015  Score=46.87  Aligned_cols=25  Identities=36%  Similarity=0.581  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999764

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.

>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=95.46  E-value=0.013  Score=49.55  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.46  E-value=0.026  Score=52.99  Aligned_cols=47  Identities=21%  Similarity=0.339  Sum_probs=38.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+...+.+.+++..+. -.+.+-++|+.|+||||+|+.+....
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999887651 23456789999999999999987754

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.45  E-value=0.012  Score=49.79  Aligned_cols=25  Identities=32%  Similarity=0.574  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999998753

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.45  E-value=0.023  Score=50.66  Aligned_cols=46  Identities=13%  Similarity=0.227  Sum_probs=34.5

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|....+.++.+.+..-.....-|-|+|..|+||+++|+.+++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            3677767777776665432344567899999999999999998865

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.45  E-value=0.024  Score=48.22  Aligned_cols=48  Identities=21%  Similarity=0.319  Sum_probs=33.9

Q ss_pred             CcccchHHHHHHHHHHHh----ccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT----EQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~----~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++=|-.+.++++-+...    +++       ..++=|..+|++|.|||-+|++|.|..
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt  235 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT  235 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc
Confidence            344466677776665432    221       345667899999999999999999965

>PLN02674 adenylate kinase

Probab=95.45  E-value=0.064  Score=45.57  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|.|++|+||||+|+.+..+.
T Consensus        30 ~~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         30 PDKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHc
Confidence            34567899999999999999998765

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.44  E-value=0.021  Score=54.39  Aligned_cols=49  Identities=22%  Similarity=0.307  Sum_probs=39.4

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|....+.++.+.+..-......|-|+|..|+|||++|+.+++..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            4568999999988888776433344566799999999999999999865

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.44  E-value=0.013  Score=48.47  Aligned_cols=25  Identities=36%  Similarity=0.571  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999864

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.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.44  E-value=0.014  Score=53.33  Aligned_cols=26  Identities=27%  Similarity=0.418  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+.|+|+|..|+|||||++.+....
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            67899999999999999999998764

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.44  E-value=0.017  Score=46.46  Aligned_cols=25  Identities=36%  Similarity=0.457  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++.|.|+.|+|||||++.++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4678899999999999999999863

>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=95.43  E-value=0.015  Score=46.94  Aligned_cols=26  Identities=35%  Similarity=0.623  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45799999999999999999997743

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.42  E-value=0.053  Score=44.45  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|+|.|+.|+||||+++.+.+..
T Consensus         3 ~~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          3 GMFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998876

>PLN02165 adenylate isopentenyltransferase

Probab=95.42  E-value=0.017  Score=51.17  Aligned_cols=26  Identities=23%  Similarity=0.525  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+||||||..+....
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            55699999999999999999988764

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.42  E-value=0.015  Score=48.48  Aligned_cols=25  Identities=44%  Similarity=0.682  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999864

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.

>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=95.41  E-value=0.014  Score=48.81  Aligned_cols=26  Identities=31%  Similarity=0.487  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44789999999999999999998653

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.

>PRK14529 adenylate kinase; Provisional

Probab=95.40  E-value=0.081  Score=44.34  Aligned_cols=22  Identities=36%  Similarity=0.507  Sum_probs=20.2

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|++|+||||+++.+....
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~   24 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKY   24 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7789999999999999998876

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=95.40  E-value=0.056  Score=50.23  Aligned_cols=101  Identities=11%  Similarity=0.117  Sum_probs=61.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc---CCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE---HDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFE-  247 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~---~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~-  247 (287)
                      +-.-++|.|-.|+|||||+..+.+.. ...   ..| .++++.+++..+ +.++++++...-....    ....+.+.- 
T Consensus       142 ~GQR~gIfgg~G~GKs~L~~~ia~~~-~~d~~~~~~-v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~  219 (460)
T PRK04196        142 RGQKLPIFSGSGLPHNELAAQIARQA-KVLGEEENF-AVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIE  219 (460)
T ss_pred             CCCEEEeeCCCCCCccHHHHHHHHhh-hhccCCCce-EEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHH
Confidence            45677899999999999999988765 321   122 677888877544 4556666665421110    001112221 


Q ss_pred             -----HHHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          248 -----ERASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 -----~l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                           ..+..+.++++   +++.||++||+..-.....+|
T Consensus       220 R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REI  259 (460)
T PRK04196        220 RILTPRMALTAAEYLAFEKGMHVLVILTDMTNYCEALREI  259 (460)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcEEEEEcChHHHHHHHHHH
Confidence                 12345677776   489999999997623344444

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.39  E-value=0.014  Score=48.47  Aligned_cols=25  Identities=40%  Similarity=0.485  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999764

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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.39  E-value=0.016  Score=47.44  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+...
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4569999999999999999999875

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.39  E-value=0.013  Score=46.04  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||+..+.+.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998765

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.38  E-value=0.032  Score=50.44  Aligned_cols=47  Identities=17%  Similarity=0.176  Sum_probs=38.9

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCc-eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNN-GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++|.+...+.+.+.+..+  .+ .-+-++|+.|+||||+|..+....
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~--rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSG--RLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcC--CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999988876  44 458899999999999998876654

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.38  E-value=0.015  Score=48.24  Aligned_cols=25  Identities=32%  Similarity=0.511  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+...
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4578999999999999999999764

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.

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

Probab=95.37  E-value=0.033  Score=51.02  Aligned_cols=49  Identities=27%  Similarity=0.291  Sum_probs=36.6

Q ss_pred             CCcccchHHHHHHHHHHHh-------c---cC------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCIT-------E---QK------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~-------~---~~------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.++.++.+...+.       .   ..      -....+.++|++|+|||+||+.+....
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            5668999998888865541       1   10      013578899999999999999998754

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.

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.37  E-value=0.013  Score=50.81  Aligned_cols=23  Identities=43%  Similarity=0.808  Sum_probs=20.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|..|+|||||++.+..-.
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll   23 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLF   23 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999998754

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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.37  E-value=0.016  Score=48.64  Aligned_cols=25  Identities=36%  Similarity=0.484  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            4579999999999999999999864

>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=95.37  E-value=0.017  Score=48.50  Aligned_cols=25  Identities=40%  Similarity=0.593  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4579999999999999999999764

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).

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.36  E-value=0.026  Score=53.95  Aligned_cols=47  Identities=19%  Similarity=0.307  Sum_probs=39.2

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|-+..++.+..++..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            458999999999999887652 34567899999999999999998765

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.35  E-value=0.016  Score=47.83  Aligned_cols=25  Identities=44%  Similarity=0.534  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4579999999999999999999764

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.

>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=95.35  E-value=0.026  Score=44.64  Aligned_cols=35  Identities=17%  Similarity=0.317  Sum_probs=27.7

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++|.     -+++.++|..|+|||||...+....
T Consensus        25 g~~~l~~~l~-----~k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLK-----GKTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHT-----TSEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhc-----CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3556666663     3789999999999999999998763

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.35  E-value=0.013  Score=48.52  Aligned_cols=22  Identities=41%  Similarity=0.683  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +++|+|..|.|||||++.+..-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            8999999999999999999864

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.

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.35  E-value=0.017  Score=56.06  Aligned_cols=47  Identities=23%  Similarity=0.274  Sum_probs=34.4

Q ss_pred             cccchHH---HHHHHHHHHhccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQES---ILDQVWRCITEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~---~~~~l~~~L~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++-|.++   ++++++++|.+++       .-++=+-++|++|+|||-||+++....
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA  368 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  368 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc
Confidence            4567765   4555566666542       345667899999999999999998865

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.34  E-value=0.016  Score=49.00  Aligned_cols=25  Identities=36%  Similarity=0.574  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999754

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.34  E-value=0.16  Score=40.62  Aligned_cols=81  Identities=19%  Similarity=0.174  Sum_probs=46.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCC-
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKH-  259 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~-  259 (287)
                      +.|.|..|+|||++|..+...      .....+++..++.++.+ +.+.|..........+.   ..+....|.+.+.. 
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~---t~E~~~~l~~~l~~~   71 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWR---TIETPRDLVSALKEL   71 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCce---EeecHHHHHHHHHhc
Confidence            678999999999999988553      22366777777777653 44444443222122222   11222334444421 


Q ss_pred             -CcEEEEEeCCCC
Q 043249          260 -KKFVLLSDDIWE  271 (287)
Q Consensus       260 -kr~LlVLDDvw~  271 (287)
                       +.=.+++|.+-.
T Consensus        72 ~~~~~VLIDclt~   84 (169)
T cd00544          72 DPGDVVLIDCLTL   84 (169)
T ss_pred             CCCCEEEEEcHhH
Confidence             233799998743

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.33  E-value=0.017  Score=48.24  Aligned_cols=25  Identities=32%  Similarity=0.553  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999754

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.

>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=95.33  E-value=0.017  Score=47.98  Aligned_cols=25  Identities=36%  Similarity=0.515  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999999764

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.33  E-value=0.017  Score=47.94  Aligned_cols=25  Identities=36%  Similarity=0.562  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

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.

>cd04163 Era Era subfamily

Probab=95.33  E-value=0.016  Score=45.21  Aligned_cols=24  Identities=29%  Similarity=0.618  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..+|+++|..|+|||||...+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998664

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.33  E-value=0.02  Score=46.36  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.|.|.+|+||||+|+.+....
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l   42 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKL   42 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            56799999999999999999998765

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PLN02924 thymidylate kinase

Probab=95.33  E-value=0.066  Score=44.85  Aligned_cols=54  Identities=17%  Similarity=0.230  Sum_probs=36.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      ....|.|-|..|+||||+++.+.... +. ..+....+-..+......+..++++.
T Consensus        15 ~g~~IviEGiDGsGKsTq~~~L~~~l-~~-~g~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         15 RGALIVLEGLDRSGKSTQCAKLVSFL-KG-LGVAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-Hh-cCCCceeeeCCCCCChHHHHHHHHHh
Confidence            45689999999999999999999988 43 34554333222223334555566554

>PRK14531 adenylate kinase; Provisional

Probab=95.32  E-value=0.018  Score=46.65  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|++|+||||+++.+....
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997765

>cd04113 Rab4 Rab4 subfamily

Probab=95.32  E-value=0.015  Score=45.62  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999987643

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

>cd03114 ArgK-like The function of this protein family is unkown

Probab=95.32  E-value=0.015  Score=45.56  Aligned_cols=23  Identities=35%  Similarity=0.710  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999997765

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.32  E-value=0.013  Score=45.40  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |+|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999775

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.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.31  E-value=0.023  Score=49.41  Aligned_cols=26  Identities=35%  Similarity=0.414  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -+..+.|||.+|.|||-||++|....
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~m  190 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATM  190 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhc
Confidence            46789999999999999999999865

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=95.31  E-value=0.033  Score=49.20  Aligned_cols=26  Identities=31%  Similarity=0.516  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.++|+.|+||||+++.+....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999997754

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.31  E-value=0.017  Score=48.09  Aligned_cols=25  Identities=32%  Similarity=0.403  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        12 ~Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         12 YHEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999864

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.31  E-value=0.014  Score=50.63  Aligned_cols=24  Identities=33%  Similarity=0.630  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+|-||+||||++-.+-.-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            589999999999999988876544

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.31  E-value=0.07  Score=49.71  Aligned_cols=102  Identities=18%  Similarity=0.267  Sum_probs=62.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCCC-----------CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFSTD-----------SWQGK  244 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~~-----------~~~~~  244 (287)
                      +-.-++|+|-.|+|||||+..+.... . +.+=+.++++-+++... ..++..+++..-.....           ...+.
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~-~-~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~  237 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNI-A-KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  237 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHH-H-HhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCC
Confidence            45678999999999999999877652 1 12227888888887644 45666666652111000           00111


Q ss_pred             CHH------HHHHHHHHHhC--CC-cEEEEEeCCCCccccccccc
Q 043249          245 SFE------ERASDITNTLK--HK-KFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       245 ~~~------~l~~~l~~~l~--~k-r~LlVLDDvw~~~~~~~~i~  280 (287)
                      +.-      ..+..+.++++  ++ ..||++||+..-...+.+++
T Consensus       238 p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~A~REIs  282 (494)
T CHL00060        238 PPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVS  282 (494)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHHHHHHHH
Confidence            211      22345778885  44 99999999976333455543

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.31  E-value=0.017  Score=48.92  Aligned_cols=25  Identities=36%  Similarity=0.604  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.30  E-value=0.017  Score=48.77  Aligned_cols=25  Identities=28%  Similarity=0.488  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999754

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.30  E-value=0.016  Score=45.27  Aligned_cols=21  Identities=33%  Similarity=0.605  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.+.
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988764

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.30  E-value=0.014  Score=50.53  Aligned_cols=24  Identities=38%  Similarity=0.672  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+|-||+||||++..+..-.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            689999999999999998765544

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

Probab=95.30  E-value=0.038  Score=50.11  Aligned_cols=26  Identities=31%  Similarity=0.464  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.-+|+|+|..|+|||||+..+....
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~~l   29 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVRRL   29 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999999877

>cd00876 Ras Ras family

Probab=95.29  E-value=0.015  Score=45.22  Aligned_cols=21  Identities=29%  Similarity=0.563  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.|+|+.|+|||||...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998753

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

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=95.29  E-value=0.065  Score=49.44  Aligned_cols=99  Identities=17%  Similarity=0.250  Sum_probs=53.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC-CHHHHHHHHHHHhCCCC----CCCCCCCHHH---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP-NLMQIQEDIGKRIGFST----DSWQGKSFEE---  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~-~~~~i~~~i~~~~~~~~----~~~~~~~~~~---  248 (287)
                      .-..++|+|..|+|||||++.+.+..     +-+.++...+.... ....+.+.++..-....    ....+.+...   
T Consensus       174 ~Gqri~I~G~sG~GKTTLL~~Ia~~~-----~~d~iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~~  248 (455)
T PRK07960        174 RGQRMGLFAGSGVGKSVLLGMMARYT-----QADVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRMQ  248 (455)
T ss_pred             CCcEEEEECCCCCCccHHHHHHhCCC-----CCCEEEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHHH
Confidence            56789999999999999999887643     22333333333322 33444444432211100    0111222211   


Q ss_pred             ---HHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          249 ---RASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       249 ---l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                         .+-.+.+++  +++..||++||+..-...+..+.
T Consensus       249 ~~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~rEis  285 (455)
T PRK07960        249 GAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIA  285 (455)
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEecchhHHHHHHHHHH
Confidence               122345555  38999999999976334455543

>PRK13768 GTPase; Provisional

Probab=95.29  E-value=0.017  Score=49.42  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.|.||+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578899999999999998887655

>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=95.29  E-value=0.018  Score=48.07  Aligned_cols=25  Identities=40%  Similarity=0.602  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999764

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.28  E-value=0.014  Score=45.80  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999997653

Rab GTPases are implicated in vesicle trafficking.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.28  E-value=0.06  Score=46.26  Aligned_cols=40  Identities=18%  Similarity=0.312  Sum_probs=29.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      .-+++-|.|.+|+||||++..+.... - + .=+..++++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~-a-~-~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQ-A-S-RGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-H-h-CCCcEEEEEecC
Confidence            56899999999999999999875433 1 2 223567777654

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

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.27  E-value=0.018  Score=50.50  Aligned_cols=24  Identities=33%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|-++|.+|+||||+|+.+....
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578889999999999999987754

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.26  E-value=0.015  Score=48.65  Aligned_cols=25  Identities=32%  Similarity=0.526  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999754

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.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.26  E-value=0.042  Score=48.58  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=19.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      .+++...|.|||||||+|-+..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A   23 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATA   23 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHH
Confidence            4788999999999999998843

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=95.26  E-value=0.18  Score=47.15  Aligned_cols=99  Identities=12%  Similarity=0.177  Sum_probs=59.6

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCCE-EEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFDV-VIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE-  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~~-~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~-  248 (287)
                      +-.-++|+|-.|+|||||| ..+.+..     .-+. ++++.+++... ..++.+.+...-....    ....+.+.-. 
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~q~-----~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r  235 (497)
T TIGR03324       161 RGQRELILGDRQTGKTAIAIDTILNQK-----GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQ  235 (497)
T ss_pred             cCCEEEeecCCCCCHHHHHHHHHHHhc-----CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHH
Confidence            4567799999999999996 5676643     3344 78888988644 4456666555322110    0001111111 


Q ss_pred             -----HHHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          249 -----RASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       249 -----l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                           .+..+.+++  +++..|||+||+..-...+..|.
T Consensus       236 ~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REis  274 (497)
T TIGR03324       236 YIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELS  274 (497)
T ss_pred             HHHHHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHH
Confidence                 122355666  48999999999976334565553

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>cd00879 Sar1 Sar1 subfamily

Probab=95.26  E-value=0.029  Score=45.43  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...|.|+|.+|+|||||...+.+.
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3455699999999999999998763

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=95.26  E-value=0.018  Score=46.67  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -+.|+|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997754

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.26  E-value=0.019  Score=47.43  Aligned_cols=25  Identities=28%  Similarity=0.496  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999764

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.25  E-value=0.017  Score=47.65  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        23 KGKMYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4468999999999999999999764

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.

>TIGR00017 cmk cytidylate kinase

Probab=95.25  E-value=0.019  Score=47.95  Aligned_cols=24  Identities=42%  Similarity=0.584  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|+|.|+.|+||||+++.+....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~   26 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKL   26 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998755

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.24  E-value=0.22  Score=42.06  Aligned_cols=51  Identities=12%  Similarity=0.162  Sum_probs=33.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      .-.++.|.|.+|+||||++..+.... - ..+=...+|++...  +...+.+.++
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~-~-~~~g~~vly~s~E~--~~~~~~~r~~   62 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENI-A-KKQGKPVLFFSLEM--SKEQLLQRLL   62 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH-H-HhCCCceEEEeCCC--CHHHHHHHHH
Confidence            44688999999999999999876654 1 22123556666544  3555555554

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=95.24  E-value=0.068  Score=47.27  Aligned_cols=37  Identities=16%  Similarity=0.289  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .....++..|..+    +.|.|.|.+|+||||+++.+....
T Consensus        52 ~~~~~vl~~l~~~----~~ilL~G~pGtGKTtla~~lA~~l   88 (327)
T TIGR01650        52 ATTKAICAGFAYD----RRVMVQGYHGTGKSTHIEQIAARL   88 (327)
T ss_pred             HHHHHHHHHHhcC----CcEEEEeCCCChHHHHHHHHHHHH
Confidence            3445566666543    458899999999999999998866

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

>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=95.24  E-value=0.019  Score=47.99  Aligned_cols=25  Identities=44%  Similarity=0.646  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999998754

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.

---

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	287
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-17
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-15
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-14
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	5e-10
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	9e-05

>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 = 81.8 bits (201), Expect = 2e-17
 Identities = 35/270 (12%), Positives = 92/270 (34%), Gaps = 66/270 (24%)

Query: 31  LKGNLD--DLQTETENLIAKKL--DLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVE 86
              N D  D+Q   +++++K+    ++              +        R+        
Sbjct: 29  FVDNFDCKDVQDMPKSILSKEEIDHIIM-------------SKDAVSGTLRL------FW 69

Query: 87  TLQQERDQEIDRLCLGGFCSKDLISSYDFGKKVEKLKEEVIKLWEKGEAMKEVYEGVPEG 146
           TL  ++++ + +     F  + L  +Y F   +  +K E  +       M  +Y      
Sbjct: 70  TLLSKQEEMVQK-----FVEEVLRINYKF--LMSPIKTEQRQ----PSMMTRMYIE---- 114

Query: 147 AAVAMAVDRTI-VGQESILDQVWR---------CITEQKKNNGIIGLYGMGGIGKTTLLK 196
                  DR     Q      V R          + E +    ++ + G+ G GKT +  
Sbjct: 115 -----QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL-IDGVLGSGKTWVAL 168

Query: 197 QVNNKFCSEEHDFDVVIW-SV--VSREPNLMQIQEDIGKRIG--FSTDSWQGKSFEERAS 251
            V   +  +      + W ++   +    ++++ + +  +I   +++ S    + + R  
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228

Query: 252 DITNTLK-------HKKFVLLSDDIWESEI 274
            I   L+       ++  +L+  ++  ++ 
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQNAKA 258

>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 = 74.6 bits (183), Expect = 3e-15
 Identities = 30/218 (13%), Positives = 66/218 (30%), Gaps = 22/218 (10%)

Query: 78  VEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDFG--KKVEKLKEEVIKLWEKGEA 135
            E I      L++     +            LI  +++     +    E+ I        
Sbjct: 41  SELISKMSTRLERIA-NFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPD 99

Query: 136 MKEVYEGVPEGAAVAMAVDRT---------IVGQESILDQVWRCITEQK-KNNGIIGLYG 185
           +       P+ +   +                 +E  +D+V + + E    ++  + L+G
Sbjct: 100 LLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHG 159

Query: 186 MGGIGKTTLLKQV-NNKFCSEEHDFDVVIWSVVSRE--PNLMQIQEDIGKRIGFSTDSWQ 242
             G GK+ +  Q  +        ++D ++W   S     +   +  DI   +    D   
Sbjct: 160 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 219

Query: 243 GKSFEERASD------ITNTLKHKKFVLLSDDIWESEI 274
             S E   S           +     + + DD+ + E 
Sbjct: 220 FPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET 257

>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 = 72.2 bits (177), Expect = 2e-14
 Identities = 38/223 (17%), Positives = 84/223 (37%), Gaps = 24/223 (10%)

Query: 72  ELWFRRVEEIETKVETLQQERDQEIDRLCLGGFCSKDLISSYDF-GKKVEKLKEEVIKLW 130
           + +    EE + + E  QQ+R   +    +     KD  S   F    + +  +++  L 
Sbjct: 32  DGFLTISEEEKVRNEPTQQQRAAML----IKMILKKDNDSYVSFYNALLHEGYKDLAALL 87

Query: 131 EKGEAMKEVYEGVPEGAAVAMAVDRT------------IVGQESILDQVWRCITEQKKNN 178
             G  +     G    + +   V                V ++ +++ + + +++ K   
Sbjct: 88  HDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEP 147

Query: 179 GIIGLYGMGGIGKTTLLKQV-NNKFCSEEHDFDVVIWSVVSREPNLMQI--QEDIGKRIG 235
           G + ++GM G GK+ L  +   +    E      V W  V ++     +   +++  R+ 
Sbjct: 148 GWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 207

Query: 236 FSTDSWQGKS--FEERASDITNTL--KHKKFVLLSDDIWESEI 274
                 Q      EE    +   +  KH + +L+ DD+W+S +
Sbjct: 208 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWV 250

>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 = 59.1 bits (143), Expect = 5e-10
 Identities = 24/124 (19%), Positives = 53/124 (42%), Gaps = 7/124 (5%)

Query: 158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF-DVVIWSV 216
           V ++ ++  + + + +     G + +YGM G GK+ L  +        E  F   V W  
Sbjct: 127 VTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVS 186

Query: 217 VSRE--PNLMQIQEDIGKRIGFSTDSWQ--GKSFEERASDITNTL--KHKKFVLLSDDIW 270
           + ++    L+   +++  R+       Q    + EE    +   +  KH + +L+ DD+W
Sbjct: 187 IGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW 246

Query: 271 ESEI 274
           +  +
Sbjct: 247 DPWV 250

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 41.1 bits (95), Expect = 9e-05
 Identities = 9/35 (25%), Positives = 18/35 (51%), Gaps = 7/35 (20%)

Query: 123 KEEVIKLWEKGEAMKEVYEGVPEGAAVAMAVDRTI 157
           K+ + KL    +A  ++Y    + A  A+A+  T+
Sbjct: 19  KQALKKL----QASLKLYA--DDSAP-ALAIKATM 46

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	287
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.88
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.77
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.75
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.68
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.68
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.22
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.13
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.09
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.06
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.05
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.97
2fna_A	357	Conserved hypothetical protein; structural genomic	98.8
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.72
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.57
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.57
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.44
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.34
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.32
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.16
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.12
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.05
3pvs_A	447	Replication-associated recombination protein A; ma	98.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.99
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.94
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.93
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.92
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.92
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.92
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.87
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.87
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.82
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.79
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.77
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.77
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.75
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.74
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.73
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.71
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.69
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.68
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.68
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.65
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.63
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.58
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.57
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.56
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.56
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.56
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.55
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.51
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.51
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.48
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.46
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.46
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.44
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.43
3bos_A	242	Putative DNA replication factor; P-loop containing	97.38
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.36
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.33
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.33
3co5_A	143	Putative two-component system transcriptional RES	97.31
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.29
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.27
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.27
2qgz_A	308	Helicase loader, putative primosome component; str	97.26
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.24
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.23
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.22
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.19
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.19
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.19
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.19
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.19
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.17
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.15
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.14
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.12
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.11
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.1
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.07
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.07
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.05
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.05
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.05
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.03
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.99
2xxa_A	433	Signal recognition particle protein; protein trans	96.97
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.93
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.93
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.91
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.91
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.9
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.88
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.87
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.86
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.83
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.82
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.82
3io5_A	333	Recombination and repair protein; storage dimer, i	96.82
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.81
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.8
3ice_A	422	Transcription termination factor RHO; transcriptio	96.75
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.74
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.73
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.73
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.72
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.72
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.72
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.7
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.7
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.68
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.68
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.67
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.66
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.65
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.64
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.62
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.62
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.61
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.6
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.58
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.57
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.56
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.55
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.55
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.55
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.54
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.54
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.54
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.53
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.53
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.53
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.53
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.52
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.51
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.51
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.5
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.5
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.48
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.48
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.47
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.47
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.45
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.45
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.45
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.44
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.43
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.43
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.43
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.42
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.42
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.41
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.41
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.4
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.4
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.39
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.38
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.38
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.38
1via_A	175	Shikimate kinase; structural genomics, transferase	96.37
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.37
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.36
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.36
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.36
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.33
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.33
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.33
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.32
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.32
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.29
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.29
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.29
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.28
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.26
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.26
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.24
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.24
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.23
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.22
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.21
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.19
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.19
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.18
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.17
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.16
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.16
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.15
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.14
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.14
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.14
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.13
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.12
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.11
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.11
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.1
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.09
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.09
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.08
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.03
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.03
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.02
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.01
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.0
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.0
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.0
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.99
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.99
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.97
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.95
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.94
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.94
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.94
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.93
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.93
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.92
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.92
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.91
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.9
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.9
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.9
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.9
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.89
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.88
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.87
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.85
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.82
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.82
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.81
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.78
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.77
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.77
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.76
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.74
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.72
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.72
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.71
2og2_A	359	Putative signal recognition particle receptor; nuc	95.71
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.7
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.69
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.68
1g6h_A	257	High-affinity branched-chain amino acid transport	95.68
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.67
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.65
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.65
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.64
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.64
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.63
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.63
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.63
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.62
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.61
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.58
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.57
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.56
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.56
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.55
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.55
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.55
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.54
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.51
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.51
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.5
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.5
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.49
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.49
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.48
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.47
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.47
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.47
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.44
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.42
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.41
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.4
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.36
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.35
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.32
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.31
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.31
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.3
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.27
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.27
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.26
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.24
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.22
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.21
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.2
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.2
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.18
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.18
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.17
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.14
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.14
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.13
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.11
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.11
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.1
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.09
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.07
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.06
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.06
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.05
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.03
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.03
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.03
3end_A	307	Light-independent protochlorophyllide reductase ir	95.02
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.02
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.99
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.98
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.98
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.97
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.97
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.96
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.95
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.94
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.91
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.9
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.88
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.88
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.87
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.86
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.86
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.85
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.84
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.84
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.84
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.83
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.83
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.81
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.81
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.81
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.8
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.8
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.8
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.8
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.8
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.79
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.78
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.78
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.77
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.76
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.75
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.74
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.72
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.72
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.72
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.71
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.7
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.69
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.69
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.68
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.67
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.66
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.66
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.63
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.63
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.63
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.63
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.62
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.61
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.6
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.6
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.59
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.59
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.57
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.56
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.56
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.56
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.56
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.55
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.55
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.53
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.53
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.5
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.5
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.49
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.48
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.47
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.46
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.45
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.45
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.45
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.45
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.43
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.43
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.41
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.4
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.4
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.39
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.39
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.38
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.38
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.37
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.37
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.36
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.35
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.35
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.34
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.33
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.33
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.32
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.32
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.31
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.31
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.31
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.3
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.28
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.28
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.26
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.26
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	94.26
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.25
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.24
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.24
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.23
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.21
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.21
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.18
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.17
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.17
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.16
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.15
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.14
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	94.13
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.1
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.09
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.08
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.07
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.05
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.03
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.03
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.01
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.01
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.0
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.98
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.96
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.95
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.94
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.94
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	93.93
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.92
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.89
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.89
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.87
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.85
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.83
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.81
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.79
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.78
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	93.76
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.76
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.74
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	93.74
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.74
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.74
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.73
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.72
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.72
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	93.7
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.7
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.69
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.65
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.63
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.61
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	93.6
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.6
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.59
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.57
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	93.56
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	93.53
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.51
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.49
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.49
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	93.46
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.44
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	93.37
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.36
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.32
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.32
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.31
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	93.31
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	93.29
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.26
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.25
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.23
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	93.21
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.16
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.16
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	93.15
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.07
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.07
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.06
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.04
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.04
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.03
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.02
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	93.02
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	93.01
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.98

>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=99.88  E-value=1.7e-22  Score=190.15  Aligned_cols=116  Identities=20%  Similarity=0.196  Sum_probs=100.0

Q ss_pred             cchHHHHHHHHHHHhcc-CCCceEEEEEccCCCcHHHHHHHHHH--HhccccCCCCEEEEEEecCCC--CHHHHHHHHHH
Q 043249          158 VGQESILDQVWRCITEQ-KKNNGIIGLYGMGGIGKTTLLKQVNN--KFCSEEHDFDVVIWSVVSREP--NLMQIQEDIGK  232 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~-~~~~~vi~I~G~gGvGKTtLa~~v~~--~~~~v~~~F~~~~wv~vs~~~--~~~~i~~~i~~  232 (287)
                      +||+.++++|.++|..+ +...++|+|+||||+||||||+.+|+  +. +++.+|++++||++++.+  +...+++.|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            69999999999999765 44689999999999999999999998  55 788999999999999985  89999999999


Q ss_pred             HhCCCCC-----CCCCCCHHHHHHHHHHHhCCC-cEEEEEeCCCCcccc
Q 043249          233 RIGFSTD-----SWQGKSFEERASDITNTLKHK-KFVLLSDDIWESEID  275 (287)
Q Consensus       233 ~~~~~~~-----~~~~~~~~~l~~~l~~~l~~k-r~LlVLDDvw~~~~~  275 (287)
                      +++....     .....+...+...|++.|+++ ||||||||||+ ..+
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~-~~~  257 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQ-EET  257 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECC-HHH
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCC-chh
Confidence            9986421     122345677889999999996 99999999999 654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.77  E-value=3.6e-19  Score=173.75  Aligned_cols=122  Identities=11%  Similarity=0.104  Sum_probs=97.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE-EEEEEecCCCCHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV-VIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~-~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      +..|||+.++++|.++|...+ ..++|+|+||||+||||||+.+|++. ++..+|++ ++|+++++.++...++..|+..
T Consensus       128 k~~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~l  205 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKL  205 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            335999999999999998632 57999999999999999999999987 77889997 9999999999998988888875


Q ss_pred             hCCCC----CCCC-----CCCHHHHHHHHHHHh---CCCcEEEEEeCCCCcccccccc
Q 043249          234 IGFST----DSWQ-----GKSFEERASDITNTL---KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       234 ~~~~~----~~~~-----~~~~~~l~~~l~~~l---~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ++...    ....     ..+.+.+...|++.|   .+|||||||||||+ ...|+.+
T Consensus       206 L~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd-~eqLe~f  262 (1221)
T 1vt4_I          206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN-AKAWNAF  262 (1221)
T ss_dssp             HHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC-HHHHHHH
T ss_pred             HhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh-HHHHHhh
Confidence            43210    0000     013345667778766   68999999999999 8888765

>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=99.75  E-value=1.4e-18  Score=177.06  Aligned_cols=125  Identities=18%  Similarity=0.336  Sum_probs=99.8

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCC-CEEEEEEecCCCC--HHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF-DVVIWSVVSREPN--LMQIQEDI  230 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F-~~~~wv~vs~~~~--~~~i~~~i  230 (287)
                      .+.+|||+.++++|.++|...+...++|+|+||||+||||||+.+|++......+| +.++||++++..+  ....+..+
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  202 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNL  202 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHH
Confidence            45689999999999999986656889999999999999999999999752235555 5678999998644  34457778


Q ss_pred             HHHhCCCCC--CCCCCCHHHHHHHHHHHhCCC--cEEEEEeCCCCcccccccc
Q 043249          231 GKRIGFSTD--SWQGKSFEERASDITNTLKHK--KFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       231 ~~~~~~~~~--~~~~~~~~~l~~~l~~~l~~k--r~LlVLDDvw~~~~~~~~i  279 (287)
                      +..+.....  .....+.+.+...|+..|.++  ||||||||||+ ..+|+.+
T Consensus       203 ~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~-~~~~~~~  254 (1249)
T 3sfz_A          203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-PWVLKAF  254 (1249)
T ss_dssp             HHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCC-HHHHTTT
T ss_pred             HHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCC-HHHHHhh
Confidence            877765321  123457788999999999977  99999999999 8888765

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.68  E-value=9.1e-17  Score=152.32  Aligned_cols=123  Identities=19%  Similarity=0.319  Sum_probs=94.0

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccc-cCCC-CEEEEEEecCCCCHHHHHHHH-
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSE-EHDF-DVVIWSVVSREPNLMQIQEDI-  230 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v-~~~F-~~~~wv~vs~~~~~~~i~~~i-  230 (287)
                      .+.+|||+.+++.|.++|.......++|+|+||||+||||||+.+|++. .+ ..+| +.++|++++.. +...++..+ 
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            4568999999999999998654468999999999999999999999876 54 6789 58999999876 444444444 


Q ss_pred             --HHHhCCC--CCCCCCCCHHHHHHHHHHHhCC--CcEEEEEeCCCCcccccccc
Q 043249          231 --GKRIGFS--TDSWQGKSFEERASDITNTLKH--KKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       231 --~~~~~~~--~~~~~~~~~~~l~~~l~~~l~~--kr~LlVLDDvw~~~~~~~~i  279 (287)
                        +..++..  .......+.+.+...|+..+.+  +++||||||||+ ...|..+
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~-~~~l~~l  254 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWD-SWVLKAF  254 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECC-HHHHHTT
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCC-HHHHHHh
Confidence              3445421  1122345677888888888876  799999999999 7666544

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.68  E-value=4.8e-16  Score=115.53  Aligned_cols=82  Identities=22%  Similarity=0.306  Sum_probs=73.1

Q ss_pred             ccccc-chhhhhhhhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHH
Q 043249           10 SADTI-RPILFYVGGEAKYIWGLKGNLDDLQTETENLIAKKLDLLNKVRLAEQQPRNRRTPTVELWFRRVEEIETKVETL   88 (287)
Q Consensus        10 ~~~~v-~~l~~~l~~~~~~~~~~~~~~~~L~~~L~~l~~~l~d~~~~~~~ae~~~~~~~~~~~~~Wl~~lr~~a~d~eD~   88 (287)
                      +++.+ +||++++.+|+.++.+++++++.|+++|++|+++|.|       |+.+.....+++++.|+.+||+++||+||+
T Consensus         2 ~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~d-------a~~~~~~~~d~~vk~W~~~vrdlaYD~ED~   74 (115)
T 3qfl_A            2 AISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIK-------IGEVPREQLDSQDKLWADEVRELSYVIEDV   74 (115)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTSCGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHHhccccCCHHHHHHHHHHHHHHHHHHHH
Confidence            35667 9999999999999999999999999999999999999       776621146899999999999999999999


Q ss_pred             HHhhHHHhhh
Q 043249           89 QQERDQEIDR   98 (287)
Q Consensus        89 ld~~~~~~~~   98 (287)
                      +|+|.++...
T Consensus        75 iD~f~~~~~~   84 (115)
T 3qfl_A           75 VDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhcc
Confidence            9999998754

>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=99.22  E-value=8.4e-11  Score=106.05  Aligned_cols=116  Identities=18%  Similarity=0.208  Sum_probs=85.7

Q ss_pred             CCcccchHHHHHHHHHHH-hcc--C--CCceEEEE--EccCCCcHHHHHHHHHHHhcccc---CCCC-EEEEEEecCCCC
Q 043249          154 DRTIVGQESILDQVWRCI-TEQ--K--KNNGIIGL--YGMGGIGKTTLLKQVNNKFCSEE---HDFD-VVIWSVVSREPN  222 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L-~~~--~--~~~~vi~I--~G~gGvGKTtLa~~v~~~~~~v~---~~F~-~~~wv~vs~~~~  222 (287)
                      +..++||+.+++.+.++| ..-  .  .....+.|  +|++|+|||||++.+++.. ...   ..|. ..+|+......+
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~   99 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV-SEAAAKEGLTVKQAYVNAFNAPN   99 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH-HHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHH-HHHHhccCCceeEEEEECCCCCC
Confidence            367899999999999988 421  1  24456666  9999999999999999876 221   1233 356777767778


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          223 LMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       223 ~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      ...++..|+.+++.... ....+...+...+.+.+.  +++++|||||++.
T Consensus       100 ~~~~~~~l~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~  149 (412)
T 1w5s_A          100 LYTILSLIVRQTGYPIQ-VRGAPALDILKALVDNLYVENHYLLVILDEFQS  149 (412)
T ss_dssp             HHHHHHHHHHHHTCCCC-CTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHH
T ss_pred             HHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHH
Confidence            99999999999876321 123355666777777775  7899999999987

>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=99.13  E-value=2.2e-10  Score=102.37  Aligned_cols=116  Identities=16%  Similarity=0.123  Sum_probs=86.6

Q ss_pred             CcccchHHHHHHHHHHHhc--cCCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CC--CCEEEEEEecCCC-CHHH
Q 043249          155 RTIVGQESILDQVWRCITE--QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HD--FDVVIWSVVSREP-NLMQ  225 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~--F~~~~wv~vs~~~-~~~~  225 (287)
                      ..++||+.+++.+.++|..  .....+.+.|+|++|+||||||+.+++.. ...    ..  ....+|+..+... +...
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            6789999999999988864  23356789999999999999999999865 211    11  3356788877766 8889


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          226 IQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       226 i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ++..++..+..........+...+...+.+.+..++.+|||||++.
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~  144 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDT  144 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHH
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHH
Confidence            9999998883222222334456677788888887777999999976

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.09  E-value=9.2e-10  Score=98.14  Aligned_cols=116  Identities=16%  Similarity=0.256  Sum_probs=88.2

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQ  227 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~  227 (287)
                      ++.++||+..++.+..+|..-  ......+.|+|++|+||||||+.+++.. ...    ..--..+|+..+...+...++
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL-EARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHH-HHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH-HHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            367899999999999988542  3356788999999999999999999865 211    101246778877888889999


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          228 EDIGKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       228 ~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      ..++.+++... .....+...+...+.+.+.  +++.+|+|||+..
T Consensus        97 ~~l~~~l~~~~-~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~  141 (387)
T 2v1u_A           97 SAIAEAVGVRV-PFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDF  141 (387)
T ss_dssp             HHHHHHHSCCC-CSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTH
T ss_pred             HHHHHHhCCCC-CCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhh
Confidence            99999997632 2234456677777777774  5689999999976

>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=99.06  E-value=4.2e-09  Score=94.05  Aligned_cols=114  Identities=18%  Similarity=0.221  Sum_probs=85.3

Q ss_pred             CcccchHHHHHHHHHHHhcc--CCCc--eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQ--KKNN--GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDI  230 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~--~~~~--~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i  230 (287)
                      +.++||+.+++.+.+++...  ....  +.+.|+|++|+|||||++.+.+.. ..... -..+|+..+...+...+...+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~-~~~~~-~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTT-ARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH-hhhcC-eeEEEEeCccCCCHHHHHHHH
Confidence            57899999999999988752  1133  389999999999999999999876 22112 246777777777888999999


Q ss_pred             HHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          231 GKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      +..++... .....+...+...+...+.  +++.+|+|||+..
T Consensus        95 ~~~l~~~~-~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~  136 (389)
T 1fnn_A           95 ARSLNIPF-PRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFN  136 (389)
T ss_dssp             HHHTTCCC-CSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGG
T ss_pred             HHHhCccC-CCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccc
Confidence            99887532 1223456666667776665  6789999999976

>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=99.05  E-value=5.4e-10  Score=99.57  Aligned_cols=116  Identities=16%  Similarity=0.229  Sum_probs=85.5

Q ss_pred             CCcccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccCC-CCEEEEEEecCCCCHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHD-FDVVIWSVVSREPNLMQIQEDI  230 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~-F~~~~wv~vs~~~~~~~i~~~i  230 (287)
                      +..++||+.+++.+.+++...  ......+.|+|++|+|||||++.+++.. ..... --..+|+..+...+...++..+
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~i   97 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL-HKKFLGKFKHVYINTRQIDTPYRVLADL   97 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHH-HHHTCSSCEEEEEEHHHHCSHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHHhcCCceEEEEECCCCCCHHHHHHHH
Confidence            467899999999999988742  3356788999999999999999999865 21110 2256777777767788888898


Q ss_pred             HHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          231 GKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      +..++.... ....+...+...+.+.+.  +++.+|||||++.
T Consensus        98 ~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~  139 (386)
T 2qby_A           98 LESLDVKVP-FTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDA  139 (386)
T ss_dssp             TTTTSCCCC-SSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHH
T ss_pred             HHHhCCCCC-CCCCCHHHHHHHHHHHHhccCCeEEEEEcChhh
Confidence            888765321 123456666666776665  4589999999976

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.97  E-value=1.4e-09  Score=95.59  Aligned_cols=106  Identities=15%  Similarity=0.124  Sum_probs=75.4

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC------CHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP------NLMQIQ  227 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~------~~~~i~  227 (287)
                      ...++||+.+++.|.+++..+    +++.|+|++|+|||||++.+.+..   .     .+|+.+....      +...++
T Consensus        11 ~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A           11 REDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             hHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHH
Confidence            356899999999999988753    689999999999999999998864   1     5677665432      566677


Q ss_pred             HHHHHHhCCC----------------CCCCCCCCHHHHHHHHHHHhCC-CcEEEEEeCCCC
Q 043249          228 EDIGKRIGFS----------------TDSWQGKSFEERASDITNTLKH-KKFVLLSDDIWE  271 (287)
Q Consensus       228 ~~i~~~~~~~----------------~~~~~~~~~~~l~~~l~~~l~~-kr~LlVLDDvw~  271 (287)
                      +.+...+...                .......+..++...+.+.... ++++|||||++.
T Consensus        79 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~  139 (350)
T 2qen_A           79 KELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQY  139 (350)
T ss_dssp             HHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGG
T ss_pred             HHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHH
Confidence            7776655320                0001123556666667666653 399999999976

>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=98.80  E-value=2.8e-08  Score=87.36  Aligned_cols=105  Identities=14%  Similarity=0.222  Sum_probs=69.0

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCC-----CCHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSRE-----PNLMQIQE  228 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~-----~~~~~i~~  228 (287)
                      ...++||+.+++.|.+ +..     +++.|+|++|+|||||++.+.+.. .  .   ..+|+.....     .+...++.
T Consensus        12 ~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~-~--~---~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINEL-N--L---PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHH-T--C---CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             HHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhc-C--C---CEEEEEchhhccccCCCHHHHHH
Confidence            3568999999999998 643     699999999999999999999875 2  2   2578877642     34455555


Q ss_pred             HHHHHhC--------------C------CCC--CC-----CCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          229 DIGKRIG--------------F------STD--SW-----QGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       229 ~i~~~~~--------------~------~~~--~~-----~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .+.+.+.              .      +..  ..     .......+...+.+.-. ++++|||||+..
T Consensus        80 ~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~  148 (357)
T 2fna_A           80 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQE  148 (357)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGG
T ss_pred             HHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHH
Confidence            5444331              0      000  00     12345555555554322 499999999966

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.72  E-value=1.3e-07  Score=82.23  Aligned_cols=113  Identities=17%  Similarity=0.093  Sum_probs=77.1

Q ss_pred             cccchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHhccccC------CCCEEEEEEecCCCCHHHHH
Q 043249          156 TIVGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH------DFDVVIWSVVSREPNLMQIQ  227 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~------~F~~~~wv~vs~~~~~~~i~  227 (287)
                      .+.||+++.+.|...|...  ....+.+-|+|++|+|||++++.|.+.. ....      .| ..+.+......+...+.
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L-~~~~~~~~~~~~-~~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDEL-ITSSARKELPIF-DYIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHH-HHTTTTTSSCCE-EEEEEETTCCC--HHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHHhhhccCCce-EEEEEeccccCCHHHHH
Confidence            3789999999999888653  3467788999999999999999999887 3221      12 24455555667888999


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHH--hCCCcEEEEEeCCCC
Q 043249          228 EDIGKRIGFSTDSWQGKSFEERASDITNT--LKHKKFVLLSDDIWE  271 (287)
Q Consensus       228 ~~i~~~~~~~~~~~~~~~~~~l~~~l~~~--l~~kr~LlVLDDvw~  271 (287)
                      ..|++++..... ........+...+...  -.+++++++||++..
T Consensus        99 ~~I~~~L~g~~~-~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~  143 (318)
T 3te6_A           99 EKIWFAISKENL-CGDISLEALNFYITNVPKAKKRKTLILIQNPEN  143 (318)
T ss_dssp             HHHHHHHSCCC---CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSS
T ss_pred             HHHHHHhcCCCC-CchHHHHHHHHHHHHhhhccCCceEEEEecHHH
Confidence            999999965321 1122334343333332  246789999999976

>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=98.57  E-value=1.5e-07  Score=76.78  Aligned_cols=46  Identities=20%  Similarity=0.328  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+.+++...  ....+.|+|.+|+||||||+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999766  44448999999999999999998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.57  E-value=3e-07  Score=73.10  Aligned_cols=46  Identities=15%  Similarity=0.402  Sum_probs=40.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|+++.++.+.+.+...  ....+.|+|.+|+||||||+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999998765  55667899999999999999998875

>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=98.44  E-value=9.7e-07  Score=72.73  Aligned_cols=47  Identities=21%  Similarity=0.362  Sum_probs=40.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+..++..+. ..+.+.|+|++|+||||||+.+++..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999987652 33578999999999999999998876

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.34  E-value=1.1e-06  Score=69.50  Aligned_cols=46  Identities=17%  Similarity=0.382  Sum_probs=39.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+.+.+...  ....+.|+|.+|+||||||+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999998765  45667899999999999999998865

>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=98.32  E-value=1.1e-06  Score=76.24  Aligned_cols=46  Identities=28%  Similarity=0.436  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+.+++..+  ..+.+.++|++|+||||+|+.+.+..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            45899999999999998766  44448899999999999999998874

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.16  E-value=7.5e-06  Score=66.16  Aligned_cols=89  Identities=20%  Similarity=0.228  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHhccCC--CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC
Q 043249          162 SILDQVWRCITEQKK--NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD  239 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~--~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~  239 (287)
                      ..++.+.+++.....  ....+.|+|.+|+||||||+.+++.. .  ......++++++      .+...+......   
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~-~--~~~~~~~~~~~~------~~~~~~~~~~~~---  103 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANEL-A--KRNVSSLIVYVP------ELFRELKHSLQD---  103 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHH-H--TTTCCEEEEEHH------HHHHHHHHC------
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEEhH------HHHHHHHHHhcc---
Confidence            345555566554321  12678899999999999999999976 2  233345565543      455555443221   


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          240 SWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       240 ~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                          .+.......+.    + .-+|||||++.
T Consensus       104 ----~~~~~~~~~~~----~-~~~lilDei~~  126 (202)
T 2w58_A          104 ----QTMNEKLDYIK----K-VPVLMLDDLGA  126 (202)
T ss_dssp             ----CCCHHHHHHHH----H-SSEEEEEEECC
T ss_pred             ----chHHHHHHHhc----C-CCEEEEcCCCC
Confidence                11222322232    2 23999999965

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.12  E-value=8.3e-06  Score=69.53  Aligned_cols=48  Identities=29%  Similarity=0.323  Sum_probs=39.0

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+.+...           -....-+.|+|++|+||||||+.+.+..
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            46899999999998877431           1245668899999999999999998865

>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=98.05  E-value=2.7e-06  Score=73.76  Aligned_cols=46  Identities=26%  Similarity=0.354  Sum_probs=40.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+.+++..+  ....+.++|++|+||||+|+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            45899999999999988876  55558999999999999999999874

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.00  E-value=2.3e-05  Score=71.47  Aligned_cols=46  Identities=28%  Similarity=0.366  Sum_probs=38.8

Q ss_pred             CcccchHHHH---HHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESIL---DQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~---~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..+   ..+...+..+  ....+.++|.+|+||||||+.+.+..
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHh
Confidence            4579998887   6777777766  56788999999999999999999865

>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=97.99  E-value=3.6e-05  Score=64.53  Aligned_cols=48  Identities=25%  Similarity=0.233  Sum_probs=35.9

Q ss_pred             CcccchHHHHHHHHHHHh---ccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT---EQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+.+++.   ..+       ...+-+.|+|++|+||||+|+.+.+..
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            467999887777765542   221       234567899999999999999999865

>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=97.94  E-value=4.2e-05  Score=65.96  Aligned_cols=94  Identities=17%  Similarity=0.184  Sum_probs=58.9

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  223 (287)
                      .+++|.+..++.|.+++...           -...+.+.|+|++|+||||||+.+.+..   ...     ++.++    .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~-----~i~v~----~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC-----EEEEE----h
Confidence            46899998888887776431           1345678999999999999999999865   222     23332    2


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..+....   .+.     ..   ..+...+.........+|+||++..
T Consensus        83 ~~l~~~~---~g~-----~~---~~~~~~f~~a~~~~p~il~iDEid~  119 (301)
T 3cf0_A           83 PELLTMW---FGE-----SE---ANVREIFDKARQAAPCVLFFDELDS  119 (301)
T ss_dssp             HHHHHHH---HTT-----CT---THHHHHHHHHHHTCSEEEEECSTTH
T ss_pred             HHHHhhh---cCc-----hH---HHHHHHHHHHHhcCCeEEEEEChHH
Confidence            2333222   222     11   1222333444446789999999964

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.93  E-value=4.5e-05  Score=65.39  Aligned_cols=48  Identities=23%  Similarity=0.283  Sum_probs=38.5

Q ss_pred             CcccchHHHHHHHHHHHhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+.+.+...          ....+.+.|+|++|+||||||+.+.+..
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            46899999999988877431          1235678899999999999999998865

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.92  E-value=0.00013  Score=63.53  Aligned_cols=95  Identities=19%  Similarity=0.224  Sum_probs=57.8

Q ss_pred             CcccchHHHHHHHHHHHhc----c------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWRCITE----Q------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      .+++|.+..++.|.+.+..    .      ....+-+-++|++|+|||+||+.+.+.. . ..     .++.++..    
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-~-~~-----~~~~i~~~----   80 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA-N-NS-----TFFSISSS----   80 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT-T-SC-----EEEEEECC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc-C-CC-----cEEEEEhH----
Confidence            5688999888888776632    1      1234678899999999999999999864 1 11     23333322    


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                              .+..   .+.......+...+...-..+..+|+||++..
T Consensus        81 --------~l~~---~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~  116 (322)
T 1xwi_A           81 --------DLVS---KWLGESEKLVKNLFQLARENKPSIIFIDEIDS  116 (322)
T ss_dssp             --------SSCC---SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTG
T ss_pred             --------HHHh---hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHH
Confidence                    0000   11122333333333333346788999999975

>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=97.92  E-value=2.4e-05  Score=61.98  Aligned_cols=43  Identities=19%  Similarity=0.214  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHHhccC-CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          160 QESILDQVWRCITEQK-KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       160 r~~~~~~l~~~L~~~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .....+.+.+++.+-. .....+.|+|++|+|||||++.+.+..
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            3445555555554321 235788999999999999999999876

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.92  E-value=3.5e-05  Score=66.33  Aligned_cols=47  Identities=17%  Similarity=0.278  Sum_probs=36.3

Q ss_pred             cccchHHHHHHHHHHHhcc-------------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ-------------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~-------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..++.+.+++...             ......+-|+|.+|+|||+||+.+.+..
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            5789998888887665421             2345578899999999999999887765

>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=97.87  E-value=3.7e-05  Score=66.92  Aligned_cols=48  Identities=27%  Similarity=0.355  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+.+..          .....+-+-++|++|+|||+||+.+.+..
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            4689999999999887731          11234568899999999999999999865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.87  E-value=9e-05  Score=62.14  Aligned_cols=93  Identities=18%  Similarity=0.194  Sum_probs=54.9

Q ss_pred             CcccchHHHHHHHHHHH---hccC-------CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWRCI---TEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L---~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      .+++|.+..++.+.+.+   ....       ...+-+.|+|.+|+||||||+.+.+..   ...|     +.++.. +  
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~-----~~i~~~-~--   80 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF-----FTISGS-D--   80 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCE-----EEECSC-S--
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc---CCCE-----EEEeHH-H--
Confidence            46889887777665543   2210       123457899999999999999999875   2222     333321 0  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIW  270 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw  270 (287)
                               +..   .........+...+.........++++|++.
T Consensus        81 ---------~~~---~~~~~~~~~~~~~~~~a~~~~~~il~iDeid  114 (257)
T 1lv7_A           81 ---------FVE---MFVGVGASRVRDMFEQAKKAAPCIIFIDEID  114 (257)
T ss_dssp             ---------STT---SCCCCCHHHHHHHHHHHHTTCSEEEEETTHH
T ss_pred             ---------HHH---HhhhhhHHHHHHHHHHHHHcCCeeehhhhhh
Confidence                     000   0111233334444455555667899999983

>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=97.82  E-value=6.6e-05  Score=66.34  Aligned_cols=48  Identities=23%  Similarity=0.192  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHHHHHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+.+..          .....+.+.|+|.+|+|||+||+.+.+..
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          11245678899999999999999998865

>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=97.79  E-value=6.9e-05  Score=69.58  Aligned_cols=48  Identities=23%  Similarity=0.302  Sum_probs=39.8

Q ss_pred             CcccchHHHHHHHHHHHhccC---------------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQK---------------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~---------------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|++..++.+.++|....               ...+.+-|+|++|+||||+|+.+.+..
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            458999999999999987510               134688999999999999999998865

>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=97.77  E-value=4.7e-05  Score=65.94  Aligned_cols=48  Identities=25%  Similarity=0.422  Sum_probs=38.5

Q ss_pred             CcccchHHHHHHHHHHHhc---cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE---QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|++..++.+..++..   .......+.|+|++|+||||||+.+++..
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999998888887753   12244677899999999999999999865

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.77  E-value=9.4e-05  Score=64.56  Aligned_cols=48  Identities=29%  Similarity=0.347  Sum_probs=39.4

Q ss_pred             CcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+..++...   ......+-|+|++|+|||+||+.+.+..
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            45899999999988888642   2355678899999999999999998764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.75  E-value=0.00012  Score=64.71  Aligned_cols=48  Identities=25%  Similarity=0.303  Sum_probs=37.0

Q ss_pred             CcccchHHHHHH---HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQ---VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~---l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.   +.+.+..+....+.+-|+|++|+|||+||+.+.+..
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   455555543234688999999999999999999876

>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=97.74  E-value=9.6e-05  Score=72.81  Aligned_cols=46  Identities=17%  Similarity=0.409  Sum_probs=39.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|++..++.+++.|...  ....+.++|.+|+||||||+.+.+..
T Consensus       170 d~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999765  34456799999999999999998865

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.73  E-value=0.00014  Score=65.07  Aligned_cols=48  Identities=25%  Similarity=0.263  Sum_probs=38.3

Q ss_pred             CcccchHHHHHHHHHHHhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+++...          ....+-+-|+|.+|+|||+||+.+.+..
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            46899999999998887321          1234678899999999999999998764

>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=97.71  E-value=0.00012  Score=64.70  Aligned_cols=48  Identities=27%  Similarity=0.349  Sum_probs=37.6

Q ss_pred             CcccchHHHHHHHHHHHhcc----------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ----------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+.+...          ....+-|-++|++|+|||+||+.+.+..
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            46899999999888876321          1223457899999999999999999976

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.69  E-value=4e-05  Score=58.61  Aligned_cols=47  Identities=19%  Similarity=0.318  Sum_probs=36.0

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..+.++.+.+..-.....-|-|+|.+|+|||++|+.+++..
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            46899999998888775422233456799999999999999999864

>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=97.68  E-value=0.00011  Score=66.87  Aligned_cols=44  Identities=25%  Similarity=0.388  Sum_probs=30.4

Q ss_pred             cchHH--HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQES--ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~--~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|..+  ....+......+.. ...+.|+|.+|+||||||+.+.+..
T Consensus       109 ~g~~n~~a~~~~~~~a~~~~~-~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          109 VGPGNSFAYHAALEVAKHPGR-YNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             CCTTTHHHHHHHHHHHHSTTS-SCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHhCCCC-CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            36443  23334443433322 6788999999999999999999865

>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=97.68  E-value=0.00016  Score=62.79  Aligned_cols=47  Identities=19%  Similarity=0.051  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.+..++.+.+++..+. ...++-+.|++|+||||+|+.+.+..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            468999999999999888552 34677888999999999999998865

>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=97.65  E-value=9.8e-05  Score=68.01  Aligned_cols=93  Identities=23%  Similarity=0.245  Sum_probs=58.3

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  223 (287)
                      ..++|.+..++.|.+++...           -....-+-|+|.+|+|||+||+.+.+..   ...|     +.++.    
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~f-----v~vn~----  271 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFF-----FLING----  271 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSEE-----EEEEH----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCCE-----EEEEc----
Confidence            35789999999888876532           2345568899999999999999998864   2222     23221    


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIW  270 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw  270 (287)
                      ..    +...+       .......+...+.....++..+|+||++.
T Consensus       272 ~~----l~~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId  307 (489)
T 3hu3_A          272 PE----IMSKL-------AGESESNLRKAFEEAEKNAPAIIFIDELD  307 (489)
T ss_dssp             HH----HHTSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHH
T ss_pred             hH----hhhhh-------cchhHHHHHHHHHHHHhcCCcEEEecchh
Confidence            11    11111       11122333444555555778899999983

>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=97.63  E-value=0.00029  Score=68.43  Aligned_cols=46  Identities=20%  Similarity=0.383  Sum_probs=39.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+++.|...  ...-+.++|.+|+||||+|+.+.+..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999998765  44556799999999999999998765

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.58  E-value=0.00026  Score=61.44  Aligned_cols=39  Identities=28%  Similarity=0.328  Sum_probs=28.7

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+..++..+......+.|+|++|+||||||+.+.+..
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            344444444443245678899999999999999999876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.00045  Score=62.36  Aligned_cols=48  Identities=25%  Similarity=0.293  Sum_probs=37.4

Q ss_pred             CcccchHHHHHHHHHHHhc----c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.++.++.|.+.+.-    .       -...+=+-++|++|+|||+||+++.+..
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            4567899888888776532    1       1345568899999999999999999976

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.56  E-value=0.00049  Score=62.21  Aligned_cols=48  Identities=29%  Similarity=0.291  Sum_probs=37.1

Q ss_pred             CcccchHHHHHHHHHHHhc----c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.++.++.|.+.+.-    +       -..++=|-++|++|+|||+||+++.+..
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            4567888888877766532    1       1345678899999999999999999976

>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=97.56  E-value=0.00058  Score=55.37  Aligned_cols=88  Identities=17%  Similarity=0.126  Sum_probs=55.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCC----------CCCCCCCCH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS----------TDSWQGKSF  246 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~----------~~~~~~~~~  246 (287)
                      .-.++.|+|.+|+|||||+..+.. . .    -..++|++....++...+.+ ++..++..          .........
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~-~----~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L-S----GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQ   91 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H-H----CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H-c----CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHH
Confidence            457999999999999999999977 3 1    13677888776666665543 33332220          000111122


Q ss_pred             HHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          247 EERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       247 ~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .++...++..+..+.-+||||.+-.
T Consensus        92 ~~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           92 RRVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHHhhcCCCEEEEcCcHH
Confidence            3344555555544577999999876

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.56  E-value=0.00038  Score=62.13  Aligned_cols=48  Identities=23%  Similarity=0.263  Sum_probs=36.7

Q ss_pred             CcccchHHHHHHHHHHHhc----c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++.|.++.+++|.+.+.-    +       -..++=+-++|++|+|||+||+++.+..
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            4567898888877765532    1       1245667899999999999999999976

>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=97.55  E-value=0.0006  Score=57.55  Aligned_cols=48  Identities=17%  Similarity=0.111  Sum_probs=34.6

Q ss_pred             CcccchHHHHHHHHH-------HHhcc-CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWR-------CITEQ-KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~-------~L~~~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.....+.++.       .+... ......+-|+|.+|+|||+||+.+.+..
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            346777666666555       33221 3356788899999999999999999865

>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=97.51  E-value=0.00045  Score=63.30  Aligned_cols=94  Identities=18%  Similarity=0.202  Sum_probs=55.6

Q ss_pred             CcccchHHHHHHHHHHHh---cc-------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWRCIT---EQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      .+++|.++.++++.+.+.   ..       -.-.+-+.|+|++|+||||||+.+.+..   ...|   +.++.+.-..  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~--   87 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVE--   87 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTT--
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHH--
Confidence            457898887766665542   21       0123347799999999999999999865   2222   2233222110  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                                     .+.......+...+.....+...+|+||++..
T Consensus        88 ---------------~~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           88 ---------------LFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             ---------------CCTTHHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             ---------------HHhcccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                           00111122233344555557789999999954

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.51  E-value=0.0004  Score=59.61  Aligned_cols=48  Identities=27%  Similarity=0.447  Sum_probs=38.1

Q ss_pred             CcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+...+...       ......+.++|.+|+||||+|+.+.+..
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            35789998888888777643       1224589999999999999999999865

>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=97.48  E-value=0.00031  Score=63.91  Aligned_cols=48  Identities=23%  Similarity=0.278  Sum_probs=37.9

Q ss_pred             CcccchHHHHHHHHHHHhc----------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.|.+.+..          .....+-+.++|++|+|||+||+.+.+..
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            4689999999888887631          11234678899999999999999999864

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.46  E-value=0.00011  Score=67.27  Aligned_cols=46  Identities=17%  Similarity=0.389  Sum_probs=39.1

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|++..++.+++.|...  ...-+-++|.+|+|||++|+.+....
T Consensus       180 d~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999999765  34456799999999999999998864

>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=97.46  E-value=7.2e-05  Score=64.76  Aligned_cols=69  Identities=19%  Similarity=0.348  Sum_probs=45.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe--cCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV--SREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITN  255 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v--s~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~  255 (287)
                      .+++-|+|++|+||||||..+.... ..     .++|+++  +..             +..     ...+.+.....+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~-G~-----~VlyIs~~~eE~-------------v~~-----~~~~le~~l~~i~~  178 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEAL-GG-----KDKYATVRFGEP-------------LSG-----YNTDFNVFVDDIAR  178 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHH-HT-----TSCCEEEEBSCS-------------STT-----CBCCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhC-CC-----CEEEEEecchhh-------------hhh-----hhcCHHHHHHHHHH
Confidence            4567899999999999999987642 11     2345555  222             111     01355666666777


Q ss_pred             HhCCCcEEEEEeCCCC
Q 043249          256 TLKHKKFVLLSDDIWE  271 (287)
Q Consensus       256 ~l~~kr~LlVLDDvw~  271 (287)
                      .+...+ +||+|++-.
T Consensus       179 ~l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          179 AMLQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHHHCS-EEEEECCTT
T ss_pred             HHhhCC-EEEEecccc
Confidence            776656 999999976

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.44  E-value=0.00044  Score=62.46  Aligned_cols=48  Identities=19%  Similarity=0.278  Sum_probs=37.6

Q ss_pred             CcccchHHHHHHHHHHHh----cc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT----EQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~----~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.++.++.|.+.+.    .+       -..++=|-++|++|+|||+||+++.+..
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            457799988888877643    21       1346678899999999999999999976

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.43  E-value=0.00065  Score=61.60  Aligned_cols=48  Identities=23%  Similarity=0.303  Sum_probs=37.4

Q ss_pred             CcccchHHHHHHHHHHHh----cc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT----EQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~----~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.++.+++|.+.+.    ..       -..++=|-++|++|+|||+||+++.+..
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            357789988888877543    11       1356778899999999999999999976

>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=97.38  E-value=0.00027  Score=57.99  Aligned_cols=59  Identities=12%  Similarity=0.115  Sum_probs=39.4

Q ss_pred             cccch---HHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          156 TIVGQ---ESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       156 ~~vGr---~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      +++|.   +..++.+..++...  ....+.|+|++|+||||||+.+.+.. ..  ......|+..+.
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~-~~--~~~~~~~~~~~~   90 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARA-NE--LERRSFYIPLGI   90 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHH-HH--TTCCEEEEEGGG
T ss_pred             hccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHH-HH--cCCeEEEEEHHH
Confidence            45652   35555565555544  56778899999999999999999876 22  223456666543

>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=97.36  E-value=0.00094  Score=55.01  Aligned_cols=93  Identities=12%  Similarity=0.128  Sum_probs=57.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCEEEEEEecCCCCHHHHHHHHHHHhCCCC----CC---CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDVVIWSVVSREPNLMQIQEDIGKRIGFST----DS---WQGKS  245 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~----~~---~~~~~  245 (287)
                      .-.++.|+|.+|+|||||++.+.... -...    .-...+|+.....++...+. .++.+++...    +.   ....+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCC
Confidence            45799999999999999999998753 1111    13568888877766655543 3445554321    00   01123


Q ss_pred             HHHH---HHHHHHHhC-CCcEEEEEeCCCC
Q 043249          246 FEER---ASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       246 ~~~l---~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                      ..+.   ...+...+. .+.-+||||++..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            3332   333555554 5778999999876

>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=97.33  E-value=0.00015  Score=63.53  Aligned_cols=46  Identities=17%  Similarity=0.321  Sum_probs=38.8

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|++..++.+..++..+  ....+.++|++|+||||+|+.+.+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcC--CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999988766  33448899999999999999998764

>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=97.33  E-value=0.0029  Score=55.40  Aligned_cols=93  Identities=14%  Similarity=0.110  Sum_probs=59.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCEEEEEEecCCCCHHHHHHHHHHHhCCCC----------CCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDVVIWSVVSREPNLMQIQEDIGKRIGFST----------DSWQ  242 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~----------~~~~  242 (287)
                      .-.++.|+|.+|+||||||..+.... ....    .-..++|++....++...+.+ ++..++...          ...+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCC
Confidence            56799999999999999999987753 1111    224688999888888777654 445554421          0111


Q ss_pred             CCCHHHHHHHHHHHhC---CCcEEEEEeCCCC
Q 043249          243 GKSFEERASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                      .....++...+...+.   .+--+||+|.+-.
T Consensus       199 ~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          199 SEHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            2222234444555554   4667999999865

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.31  E-value=5.9e-05  Score=57.52  Aligned_cols=48  Identities=15%  Similarity=0.143  Sum_probs=33.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++++.+.+..-.....-|-|+|.+|+|||++|+.+++..
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            357899888888888775421133446799999999999999998754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.29  E-value=0.00076  Score=60.57  Aligned_cols=48  Identities=33%  Similarity=0.365  Sum_probs=36.7

Q ss_pred             CcccchHHHHHHHHHHHhc----c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++-|.++.++.|.+.+.-    .       -...+=|-++|++|+|||.||+++.+..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            3466888888877765532    1       1345678899999999999999999976

>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=97.27  E-value=0.0011  Score=58.33  Aligned_cols=87  Identities=16%  Similarity=0.157  Sum_probs=57.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~l  253 (287)
                      .-.++.|+|.+|+|||||+..+.... ..  .=..++|++....++..     .+++++.....   ....+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~-~~--~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEA-QK--MGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-Hh--cCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            45799999999999999999998765 21  11246788777766654     45556543211   1234556666666


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ .+.-++|+|.+-.
T Consensus       132 ~~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHHTSCCSEEEEECTTT
T ss_pred             HHHhhhcCCCeEEehHhhh
Confidence            66554 4566899999865

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.27  E-value=0.00023  Score=54.71  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+.|+|..|+|||||++.+.+..
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            45688999999999999999999976

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.26  E-value=0.00057  Score=59.04  Aligned_cols=42  Identities=21%  Similarity=0.345  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHhccCC-CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          161 ESILDQVWRCITEQKK-NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       161 ~~~~~~l~~~L~~~~~-~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+.+.+++..... ....+-|+|.+|+|||+||+.+.+..
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555566654321 24678899999999999999999976

>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=97.24  E-value=0.00038  Score=61.32  Aligned_cols=47  Identities=21%  Similarity=0.362  Sum_probs=39.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|++..++.+.+.+..+. ..+.+.|+|++|+||||+|+.+.+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999887652 23567899999999999999998865

>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=97.23  E-value=0.0013  Score=57.10  Aligned_cols=93  Identities=14%  Similarity=0.202  Sum_probs=59.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC----C---CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD----S---WQGKS  245 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~----~---~~~~~  245 (287)
                      .-.++.|+|.+|+||||||..+.... ....    .-..++|++....++...+.+ ++..++....    .   ....+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~-~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~  183 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNV-QLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAIN  183 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCC
Confidence            45789999999999999999987653 1110    024788999888888777654 4555554210    0   01123


Q ss_pred             HH---HHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          246 FE---ERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       246 ~~---~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .+   ++...+...++  .+.-+||+|.+-.
T Consensus       184 ~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          184 TDHQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence            33   34445555554  4677999999865

>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=97.22  E-value=0.00021  Score=61.51  Aligned_cols=46  Identities=20%  Similarity=0.328  Sum_probs=38.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|++..++.+.+++..+  ....+-++|++|+||||+|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            35799999999998888765  44448899999999999999998864

>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=97.19  E-value=0.00029  Score=59.27  Aligned_cols=47  Identities=13%  Similarity=0.211  Sum_probs=34.8

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..+..+.+.+..-......+-|+|.+|+|||+||+.+++..
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             cceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            47899988888887765422233567799999999999999999865

>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=97.19  E-value=0.0003  Score=60.29  Aligned_cols=48  Identities=21%  Similarity=0.299  Sum_probs=38.5

Q ss_pred             CcccchHHHHHHHHHHHhc------------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE------------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.+..++.+...+..            .......+-++|.+|+|||++|+.+.+..
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            5689999999998887754            11234567799999999999999998865

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.19  E-value=0.00035  Score=56.60  Aligned_cols=40  Identities=20%  Similarity=0.361  Sum_probs=30.5

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -.++|.+.+........+++|+|..|+|||||++.+..-.
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455555554333367899999999999999999998765

>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=97.19  E-value=0.00035  Score=61.10  Aligned_cols=47  Identities=23%  Similarity=0.346  Sum_probs=36.0

Q ss_pred             cccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..++.+-..+...   ......+.++|++|+||||||+.+.+..
T Consensus        26 ~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           26 EFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4688877777766555432   2345778999999999999999999865

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.17  E-value=0.00074  Score=57.86  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+..+.++|++|+|||+||+.+.+..
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            45678899999999999999999976

>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=97.15  E-value=0.0021  Score=56.81  Aligned_cols=87  Identities=17%  Similarity=0.155  Sum_probs=57.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~l  253 (287)
                      .-.++-|+|.+|+||||||..+.... . + .-..++|++....++..     .+.+++.....   ....+.+++...+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~-~-~-~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQA-Q-K-AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-H-H-TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHH-H-H-CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            45688999999999999998887654 2 1 12367899988777654     24455542111   1123566666677


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ ++--+||+|.+-.
T Consensus       145 ~~l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          145 ELLVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCCEEEEeChHH
Confidence            76665 3456999999865

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.14  E-value=0.0004  Score=67.52  Aligned_cols=46  Identities=17%  Similarity=0.389  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|++..++.+++.|...  ...-+-++|.+|+||||+|+.+.+..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999999765  34456799999999999999998864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.12  E-value=0.00073  Score=54.43  Aligned_cols=43  Identities=23%  Similarity=0.371  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHHHhcc-CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          160 QESILDQVWRCITEQ-KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       160 r~~~~~~l~~~L~~~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++.++.+.+.+... .....+|+|.|..|+|||||++.+....
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            455677777777653 2356899999999999999999998754

>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=97.11  E-value=0.00099  Score=64.69  Aligned_cols=93  Identities=23%  Similarity=0.232  Sum_probs=56.0

Q ss_pred             cccchHHHHHHHHHHHh----ccC-------CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          156 TIVGQESILDQVWRCIT----EQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~----~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      ++.|.++.+++|.+++.    .++       ..++-|-++|++|+|||+||+.+.+..   ..+|   +.|..+      
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~~---~~v~~~------  272 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFF---FLINGP------  272 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCEE---EEEEHH------
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCeE---EEEEhH------
Confidence            46688877777766542    221       245678899999999999999999865   2232   333321      


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                          +++..       +...+...+...+.........+|+||++..
T Consensus       273 ----~l~sk-------~~gese~~lr~lF~~A~~~~PsIIfIDEiDa  308 (806)
T 3cf2_A          273 ----EIMSK-------LAGESESNLRKAFEEAEKNAPAIIFIDELDA  308 (806)
T ss_dssp             ----HHHSS-------CTTHHHHHHHHHHHHHTTSCSEEEEEESGGG
T ss_pred             ----Hhhcc-------cchHHHHHHHHHHHHHHHcCCeEEEEehhcc
Confidence                11111       1122233333444444556788899998854

>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=97.10  E-value=0.0016  Score=57.46  Aligned_cols=87  Identities=18%  Similarity=0.187  Sum_probs=55.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-.++.|.|.+|+||||||..+.... ..  .=..++|++....++...     +.+++.....+   ...+.+++...+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~-~~--~g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA-QR--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HH--CCCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHH
Confidence            45789999999999999999987654 21  123578898887776542     44555421111   122455555555


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ....+ .+--+||+|.+-.
T Consensus       134 ~~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhccCCCEEEEcCHHH
Confidence            54443 4556999999854

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.07  E-value=0.00059  Score=58.84  Aligned_cols=48  Identities=13%  Similarity=0.252  Sum_probs=37.9

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.+..+.++.+.+..-......|-|+|.+|+|||++|+.+++..
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            357899988888888876532234556799999999999999999865

>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=97.07  E-value=0.00027  Score=61.91  Aligned_cols=45  Identities=18%  Similarity=0.193  Sum_probs=36.5

Q ss_pred             CcccchHHHHHHHHHHH-hccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCI-TEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L-~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+++|.+...+.+.+++ ..+  ....+.|+|+.|+||||+++.+.+.
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~--~~~~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPR--DLPHLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT--CCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCC--CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            45799999999888887 443  3333899999999999999999884

>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=97.05  E-value=0.0019  Score=55.94  Aligned_cols=93  Identities=12%  Similarity=0.171  Sum_probs=59.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC---------CC-----CEEEEEEecCCCCHHHHHHHHHHHhCCCCC---
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH---------DF-----DVVIWSVVSREPNLMQIQEDIGKRIGFSTD---  239 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~---------~F-----~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~---  239 (287)
                      .-.++-|+|.+|+||||||..+.... ....         ..     ..++|++....++...+.+ ++.+++....   
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~-~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~  174 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL-QNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVL  174 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT-TCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHh
Confidence            45799999999999999999887642 1110         11     4788999888888877764 4555554210   


Q ss_pred             -C---CCCCCHH---HHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          240 -S---WQGKSFE---ERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       240 -~---~~~~~~~---~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                       .   ....+.+   ++...+...+.  .+--+||+|.+-.
T Consensus       175 ~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  215 (322)
T 2i1q_A          175 DNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTS  215 (322)
T ss_dssp             HTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSH
T ss_pred             cCEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence             0   0112333   24445666654  3567999999864

>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=97.05  E-value=0.0028  Score=55.72  Aligned_cols=87  Identities=17%  Similarity=0.170  Sum_probs=57.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~l  253 (287)
                      .-.++.|+|.+|+||||||..+.... . + .=..++|++....++..     .+++++.....   ....+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~-~-~-~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANA-Q-A-AGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-H-H-TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-H-h-CCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45789999999999999999987654 1 1 12357888888776653     24555542111   1123556665556


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ....+ .+.=+||+|.+-.
T Consensus       132 ~~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEcChHh
Confidence            55554 4566999999865

>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=97.05  E-value=0.0006  Score=59.62  Aligned_cols=46  Identities=22%  Similarity=0.403  Sum_probs=37.7

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+...+..+  ....+.++|+.|+||||+|+.+.+..
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34689888888888888766  44448999999999999999998864

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.03  E-value=0.0011  Score=61.08  Aligned_cols=48  Identities=21%  Similarity=0.322  Sum_probs=34.2

Q ss_pred             CcccchHHHHHHHHHHH---hccC-------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCI---TEQK-------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L---~~~~-------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.+.++.+..   ....       .-.+-+.|+|.+|+||||||+.+.+..
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            46889887766665543   2210       112238899999999999999999865

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.99  E-value=0.00023  Score=58.50  Aligned_cols=89  Identities=19%  Similarity=0.015  Sum_probs=49.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNT  256 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~  256 (287)
                      .-.++.|+|..|.||||++..+.... .. ....+ ..+.-..+  .. -...|+++++.........+..++...+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~-~~-~g~kV-li~~~~~d--~r-~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRL-EY-ADVKY-LVFKPKID--TR-SIRNIQSRTGTSLPSVEVESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHH-HH-TTCCE-EEEEECCC--GG-GCSSCCCCCCCSSCCEEESSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHH-Hh-cCCEE-EEEEeccC--ch-HHHHHHHhcCCCccccccCCHHHHHHHHHHH
Confidence            45788999999999999888877665 22 22333 33332222  22 2224455555422211122334455555555


Q ss_pred             hCCCcE-EEEEeCCCC
Q 043249          257 LKHKKF-VLLSDDIWE  271 (287)
Q Consensus       257 l~~kr~-LlVLDDvw~  271 (287)
                      +.+.++ +|++|.+-.
T Consensus        85 ~~~~~~dvViIDEaQ~  100 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQF  100 (223)
T ss_dssp             TSCTTCCEEEECSGGG
T ss_pred             hhCCCCCEEEEecCcc
Confidence            554555 999999854

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.97  E-value=0.0078  Score=54.40  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++|.+|+||||++..+....
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            57899999999999999999987766

>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=96.93  E-value=0.0021  Score=59.94  Aligned_cols=48  Identities=23%  Similarity=0.401  Sum_probs=36.7

Q ss_pred             CcccchHHHHHHHHHHHhc----cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++..+.+.+.+.-    ......++.++|++|+||||||+.+....
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            4578988877777654431    12256689999999999999999999865

>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=96.93  E-value=0.0057  Score=52.44  Aligned_cols=26  Identities=35%  Similarity=0.448  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++++|.+|+||||++..+....
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            46799999999999999999987765

>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=96.91  E-value=0.00093  Score=58.94  Aligned_cols=47  Identities=23%  Similarity=0.258  Sum_probs=36.8

Q ss_pred             cccchHHHHHHHHHHHhc-------------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITE-------------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~-------------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..++.+...+..             .......+.++|++|+|||++|+.+.+..
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            468999888888877731             11134678899999999999999998865

>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=96.91  E-value=0.0013  Score=56.37  Aligned_cols=28  Identities=29%  Similarity=0.230  Sum_probs=24.5

Q ss_pred             CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          175 KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       175 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .....+|+|+|..|+|||||++.+....
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3467899999999999999999987765

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.90  E-value=0.00049  Score=53.49  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|++|+||||+|+.+ ...
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            47899999999999999999 543

>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=96.88  E-value=0.0094  Score=51.83  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+||||+++.+....
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999988765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.87  E-value=0.0032  Score=51.26  Aligned_cols=89  Identities=18%  Similarity=0.161  Sum_probs=51.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC----------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS----------------  240 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~----------------  240 (287)
                      .-.++.|+|.+|+|||||++.+.... ... . ..+.|+...  .....+...+. .++.....                
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~-~-~~v~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   95 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKG-LRD-G-DPCIYVTTE--ESRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEK   95 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHH-HHH-T-CCEEEEESS--SCHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC---
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH-HHC-C-CeEEEEEcc--cCHHHHHHHHH-HhcchHHHHhhCCEEEEecccccc
Confidence            34789999999999999999998654 211 1 134555443  34555544433 33321100                


Q ss_pred             -----CCCCCHHHHHHHHHHHhC---CCcEEEEEeCCCC
Q 043249          241 -----WQGKSFEERASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       241 -----~~~~~~~~l~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                           ....+..++...+...+.   -+..+||||....
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~  134 (235)
T 2w0m_A           96 EDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSA  134 (235)
T ss_dssp             -CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGG
T ss_pred             CceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchH
Confidence                 011255666555555443   2334999999874

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.86  E-value=0.00062  Score=57.25  Aligned_cols=48  Identities=27%  Similarity=0.279  Sum_probs=34.7

Q ss_pred             CcccchHHHHHHHHHHHhc---c-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE---Q-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+.+.+..   .       ....+-+.|+|.+|+|||+||+.+.+..
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            4688988777777665431   1       1123346799999999999999999876

>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=96.83  E-value=0.0016  Score=59.37  Aligned_cols=48  Identities=27%  Similarity=0.322  Sum_probs=36.4

Q ss_pred             CcccchHHHHHHHHHH---HhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRC---ITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~---L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++.++.+..+   +..+....+-+-++|++|+|||+||+.+.+..
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            5689999887765443   44443334568899999999999999999876

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.82  E-value=0.00073  Score=53.60  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+++|+|+.|+|||||++.+...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999764

>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=96.82  E-value=0.01  Score=50.85  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++++|.+|+||||++..+....
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            6799999999999999999987655

>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=96.82  E-value=0.0067  Score=52.34  Aligned_cols=86  Identities=12%  Similarity=0.092  Sum_probs=55.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHH-HHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEER-ASDITN  255 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l-~~~l~~  255 (287)
                      ++-|+|.+|+|||||+-.+.... .....=..++|++....++..     -+++++...+..   ...+.++. ...+..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~-~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSY-MRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH-HHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH-HhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            78999999999999988876654 211112467899888887764     267777632211   12344554 333333


Q ss_pred             H--hC-CCcEEEEEeCCCC
Q 043249          256 T--LK-HKKFVLLSDDIWE  271 (287)
Q Consensus       256 ~--l~-~kr~LlVLDDvw~  271 (287)
                      .  ++ ++.-|||+|-|-.
T Consensus       104 l~~i~~~~~~lvVIDSI~a  122 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGN  122 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTT
T ss_pred             HHHhhccCceEEEEecccc
Confidence            2  33 5788999999976

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.81  E-value=0.0013  Score=55.79  Aligned_cols=47  Identities=32%  Similarity=0.309  Sum_probs=33.6

Q ss_pred             CcccchHHHHHHHHHHHhcc------------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ------------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|.++.++.|.+.+...            ..... +.++|++|+|||||++.+.+..
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHc
Confidence            45778888888777654211            11223 8999999999999999998865

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.80  E-value=0.0009  Score=58.14  Aligned_cols=44  Identities=25%  Similarity=0.430  Sum_probs=37.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.+..++.+...+..+    .-+-++|.+|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHh
Confidence            46799999999888887765    357799999999999999998865

>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=96.75  E-value=0.0036  Score=55.48  Aligned_cols=109  Identities=12%  Similarity=0.135  Sum_probs=58.1

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCC--CCCCCC
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS--TDSWQG  243 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~--~~~~~~  243 (287)
                      ++++.+..=. .-..++|+|..|+|||||++.+.+........+.| +++-+.+......   ++.+.+...  ... .+
T Consensus       163 raID~~~pi~-rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER~~Ev~---~~~~~~~~~vV~at-ad  236 (422)
T 3ice_A          163 RVLDLASPIG-RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDERPEEVT---EMQRLVKGEVVAST-FD  236 (422)
T ss_dssp             HHHHHHSCCB-TTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSCHHHHH---HHHTTCSSEEEEEC-TT
T ss_pred             eeeeeeeeec-CCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCChHHHH---HHHHHhCeEEEEeC-CC
Confidence            4444444322 45688999999999999999987654111223444 4577887643222   223333110  001 11


Q ss_pred             CCHHHH------HHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          244 KSFEER------ASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       244 ~~~~~l------~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                      ......      +-.+.+++  +++..||++||+..-...+..+.
T Consensus       237 ep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~A~revs  281 (422)
T 3ice_A          237 EPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVV  281 (422)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHHHHHHHH
Confidence            121111      11123333  48999999999966223444443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.74  E-value=0.00092  Score=51.92  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|+.|+||||+++.+....
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            478999999999999999997654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.73  E-value=0.001  Score=53.33  Aligned_cols=26  Identities=42%  Similarity=0.310  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+||||+++.+....
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            45689999999999999999998754

>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=96.73  E-value=0.0069  Score=54.16  Aligned_cols=93  Identities=12%  Similarity=0.173  Sum_probs=55.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc----CCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCC----C---CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTD----S---WQGKS  245 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~----~---~~~~~  245 (287)
                      .-.++.|+|.+|+|||||+..+.-.. ...    ..-..++|++....++...+. .+++.++....    .   ....+
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~-~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl~~~~vleni~~~~~~~  254 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYN  254 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHh-ccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCCChHhHhhcEEEeccCC
Confidence            45799999999999999999765322 111    123468888877766666543 36666654210    0   01122


Q ss_pred             HHH---HHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          246 FEE---RASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       246 ~~~---l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...   ....+...+. .+.-+||+|.+-.
T Consensus       255 ~~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          255 ADHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             hHHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence            222   2223333332 5678999999865

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.72  E-value=0.0023  Score=56.06  Aligned_cols=45  Identities=20%  Similarity=0.318  Sum_probs=33.2

Q ss_pred             cchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+.+.-.+.+++.+...  ......|.|+|+.|+||||+++.+....
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            45566677777776532  2255678999999999999999887654

>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=96.72  E-value=0.0015  Score=54.42  Aligned_cols=48  Identities=21%  Similarity=0.313  Sum_probs=32.3

Q ss_pred             CcccchHHHHHHHHHHHh---cc------C-CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT---EQ------K-KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~~------~-~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.+..+.++.+...   ..      + .-.+-+.|+|.+|+|||||++.+.+..
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            457888766555544332   11      0 011228899999999999999999865

>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=96.72  E-value=0.0052  Score=53.94  Aligned_cols=93  Identities=17%  Similarity=0.240  Sum_probs=55.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCC----CEEEEEEecCCCCHHHHHHHHHHHhCCCC----------CCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF----DVVIWSVVSREPNLMQIQEDIGKRIGFST----------DSWQ  242 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F----~~~~wv~vs~~~~~~~i~~~i~~~~~~~~----------~~~~  242 (287)
                      .-.++.|+|..|+|||||+..+.... ......    ..++|++....+....+ ..+++..+...          ....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCC
Confidence            56899999999999999999998754 111011    24588887665544443 33444433210          0001


Q ss_pred             CCCHHHHHHHHHHHhC------CCcEEEEEeCCCC
Q 043249          243 GKSFEERASDITNTLK------HKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l~~~l~~~l~------~kr~LlVLDDvw~  271 (287)
                      .....++...+...+.      .+.=+||||.+-.
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta  242 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  242 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSST
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchH
Confidence            1112334444555554      4677999999976

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.70  E-value=0.0023  Score=52.06  Aligned_cols=39  Identities=18%  Similarity=0.330  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+.+-..+...  ...+|.|+|.+|+|||||+..+....
T Consensus        24 ~~a~~~r~~~~~~--~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           24 RLADKNRKLLNKH--GVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHT--TCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3344444444433  67899999999999999999988764

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.70  E-value=0.00085  Score=52.32  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|+|+|+.|+|||||++.+....
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            579999999999999999998764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.68  E-value=0.001  Score=52.54  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++|+|+.|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.68  E-value=0.0013  Score=60.65  Aligned_cols=44  Identities=14%  Similarity=0.207  Sum_probs=37.4

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+...+..+    .-+-++|.+|+|||+||+.+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHH
Confidence            45799999999888877765    467899999999999999998865

>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=96.67  E-value=0.0011  Score=51.87  Aligned_cols=25  Identities=20%  Similarity=0.348  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|++|+||||+++.+....
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3578999999999999999998765

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.66  E-value=0.0012  Score=51.67  Aligned_cols=22  Identities=32%  Similarity=0.345  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999977

>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=96.65  E-value=0.0013  Score=52.79  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+|||||++.+....
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999999998765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.64  E-value=0.0022  Score=52.00  Aligned_cols=43  Identities=16%  Similarity=0.325  Sum_probs=32.7

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -+.++..+.+...+...  +..+|.|+|.+|+|||||+..+....
T Consensus        12 ~~~~~~~~~~~~~~~~~--~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           12 AENKRLAEKNREALRES--GTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHH--TCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHhhccc--CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34455566666555544  67899999999999999999988764

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.62  E-value=0.0014  Score=52.61  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998753

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.62  E-value=0.0026  Score=53.80  Aligned_cols=47  Identities=23%  Similarity=0.424  Sum_probs=32.9

Q ss_pred             CcccchHHHHHHHHHHHh---cc--------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT---EQ--------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~---~~--------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.+..++++.+...   ..        .-... +.|+|..|+|||||++.+.+..
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHHc
Confidence            467888876665554332   11        01123 8899999999999999999865

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.61  E-value=0.012  Score=50.72  Aligned_cols=73  Identities=12%  Similarity=0.001  Sum_probs=44.0

Q ss_pred             chHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhcccc-CCCCEEEEEEecC-CCCHHHHHHHHHHHhC
Q 043249          159 GQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE-HDFDVVIWSVVSR-EPNLMQIQEDIGKRIG  235 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~-~~F~~~~wv~vs~-~~~~~~i~~~i~~~~~  235 (287)
                      |-++.++.+.+.+..+  +.+.+-++|++|+||||+|+.+.+...... .|.+. .++..+. ...... .+++++.+.
T Consensus         1 g~~~~~~~L~~~i~~~--~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~-ir~li~~~~   75 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDD-IRTIKDFLN   75 (305)
T ss_dssp             ---CHHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHH-HHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHCC--CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHH-HHHHHHHHh
Confidence            3455667777777666  367889999999999999999977420111 24444 4454443 333333 345666554

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.60  E-value=0.0034  Score=51.26  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=24.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+||.|.|++|+||||.|+.+....
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999998876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.58  E-value=0.0015  Score=52.77  Aligned_cols=26  Identities=31%  Similarity=0.418  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|..|+|||||++.+....
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            45799999999999999999998864

>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=96.57  E-value=0.0026  Score=56.27  Aligned_cols=48  Identities=21%  Similarity=0.265  Sum_probs=36.1

Q ss_pred             CcccchHHHHHHHHHHHhc----------------------------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE----------------------------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~----------------------------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.|...+..                            .......+.++|++|+||||+|+.+.+..
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            4578988888888776620                            01134567899999999999999998865

>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=96.56  E-value=0.0018  Score=51.31  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|++|+||||+++.+....
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998765

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.55  E-value=0.0015  Score=51.47  Aligned_cols=25  Identities=32%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.|.|+|+.|+||||+++.+....
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            4678899999999999999998764

>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=96.55  E-value=0.0018  Score=50.67  Aligned_cols=26  Identities=27%  Similarity=0.530  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+||||+++.+....
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999997754

>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=96.55  E-value=0.0034  Score=52.13  Aligned_cols=42  Identities=21%  Similarity=0.230  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          161 ESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       161 ~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+.++.+.+.........|.|.|++|+||||+|+.+....
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           12 IDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            334444444443333366789999999999999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.54  E-value=0.0017  Score=52.12  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|+.|+|||||++.+....
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            56799999999999999999998754

>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=96.54  E-value=0.0015  Score=51.71  Aligned_cols=23  Identities=39%  Similarity=0.621  Sum_probs=21.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|+|..|+|||||++.+....
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            57999999999999999998765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.54  E-value=0.0015  Score=52.47  Aligned_cols=26  Identities=23%  Similarity=0.388  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        17 ~~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           17 FPGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             CSSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998765

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.53  E-value=0.0017  Score=52.07  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|+.|+||||+++.+....
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999997643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.53  E-value=0.0017  Score=51.37  Aligned_cols=24  Identities=33%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|+.|+||||+++.+....
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            468999999999999999998876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.53  E-value=0.0012  Score=51.64  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=20.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      ...+++|+|..|+|||||++..+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            45789999999999999999643

>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=96.53  E-value=0.02  Score=51.58  Aligned_cols=26  Identities=35%  Similarity=0.321  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|.+|+||||++..+....
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            47899999999999999999987665

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.52  E-value=0.014  Score=50.42  Aligned_cols=90  Identities=17%  Similarity=0.167  Sum_probs=56.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhC-CC------------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIG-FS------------------  237 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~-~~------------------  237 (287)
                      .-.++.|.|.+|+||||||..+.... -.+ . ..++|++..  -+...+...++.... .+                  
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~-a~~-g-~~vl~~slE--~s~~~l~~R~~~~~~~i~~~~l~~~~~~l~~~~~~~  141 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNM-SDN-D-DVVNLHSLE--MGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGK  141 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH-HTT-T-CEEEEEESS--SCHHHHHHHHHHHHTTCCHHHHHSCHHHHCSSCHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHc-C-CeEEEEECC--CCHHHHHHHHHHHHcCCCHHHHhcCCCCCCHHHHHH
Confidence            45788999999999999999987654 222 2 567777655  345666665554311 00                  


Q ss_pred             -----------C---CCCCCCCHHHHHHHHHHHhCC---CcEEEEEeCCCC
Q 043249          238 -----------T---DSWQGKSFEERASDITNTLKH---KKFVLLSDDIWE  271 (287)
Q Consensus       238 -----------~---~~~~~~~~~~l~~~l~~~l~~---kr~LlVLDDvw~  271 (287)
                                 .   ......+..++...+++..+.   ++.+||+|-+-.
T Consensus       142 l~~a~~~l~~~~i~i~d~~~~~~~~i~~~i~~l~~~~~~~~~lVVID~l~~  192 (315)
T 3bh0_A          142 LSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQL  192 (315)
T ss_dssp             HHHHHHHHHTSCEEEECCSCCBHHHHHHHHHHHHHTSSSCCEEEEEECGGG
T ss_pred             HHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEEEeCchh
Confidence                       0   011224667777777765542   234899998754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.51  E-value=0.0033  Score=53.68  Aligned_cols=41  Identities=20%  Similarity=0.176  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          162 SILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       162 ~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+++++..+...   .....+|.|.|++|+||||+|+.+....
T Consensus        14 ~~~~~~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           14 NRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444444432   2356789999999999999999998754

>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=96.51  E-value=0.015  Score=50.11  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|.+|+||||++..+....
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            56899999999999999999998765

>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=96.50  E-value=0.0017  Score=51.52  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+++|+|+.|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>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=96.50  E-value=0.0017  Score=51.01  Aligned_cols=26  Identities=42%  Similarity=0.354  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|++|+||||+++.+....
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            44678899999999999999998765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.48  E-value=0.0018  Score=51.74  Aligned_cols=23  Identities=30%  Similarity=0.647  Sum_probs=21.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|+.|+||||+++.+....
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            68999999999999999998876

>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=96.48  E-value=0.0012  Score=57.46  Aligned_cols=46  Identities=24%  Similarity=0.359  Sum_probs=33.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+...+...  ...-+-|+|.+|+|||+||+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhC
Confidence            35789888666554444332  22338899999999999999999865

>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=96.47  E-value=0.0019  Score=51.00  Aligned_cols=24  Identities=21%  Similarity=0.394  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|+.|+||||+++.+....
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            579999999999999999998865

>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=96.47  E-value=0.0021  Score=51.39  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +..+|+|.|+.|+||||+++.+..
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            678999999999999999999866

>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=96.45  E-value=0.01  Score=47.94  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=21.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|.|.|++|+||||.|+.+..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999998876

>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=96.45  E-value=0.002  Score=52.07  Aligned_cols=26  Identities=31%  Similarity=0.332  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|+.|+|||||++.+....
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            45789999999999999999998754

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.44  E-value=0.0021  Score=50.81  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|+.|+||||+|+.+....
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            4689999999999999999998765

>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=96.43  E-value=0.0018  Score=51.94  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+|+|+|+.|+||||+++.+..
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            3689999999999999999976

>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=96.43  E-value=0.031  Score=50.46  Aligned_cols=26  Identities=31%  Similarity=0.500  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|.+|+||||++..+....
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            47899999999999999999887765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.43  E-value=0.0027  Score=52.99  Aligned_cols=43  Identities=30%  Similarity=0.336  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          160 QESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       160 r~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+...+.++..+..+   .....+|.|+|++|+||||+|+.+....
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            344455555555433   2356789999999999999999998765

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.42  E-value=0.0023  Score=50.77  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|.|+.|+||||+++.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

>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=96.42  E-value=0.002  Score=52.57  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999997654

>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=96.41  E-value=0.014  Score=52.64  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.++|.+|+||||++..+....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998766

>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=96.41  E-value=0.0021  Score=51.78  Aligned_cols=25  Identities=40%  Similarity=0.570  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+|+|+|+.|+||||+++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4579999999999999999999664

>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=96.40  E-value=0.0022  Score=53.19  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|+|+.|+|||||++.+....
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            45799999999999999999998544

>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=96.40  E-value=0.0019  Score=55.95  Aligned_cols=26  Identities=35%  Similarity=0.715  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+||+|.|-|||||||.+-.+---.
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aL   72 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAF   72 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHH
Confidence            67999999999999999998876655

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.39  E-value=0.002  Score=51.88  Aligned_cols=26  Identities=35%  Similarity=0.521  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45789999999999999999998754

>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=96.38  E-value=0.0025  Score=50.40  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|.|+|+.|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4568999999999999999999775

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.38  E-value=0.0046  Score=53.60  Aligned_cols=45  Identities=24%  Similarity=0.243  Sum_probs=31.0

Q ss_pred             cchHHHHHHHHHHHhcc--CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQ--KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|-...+..+...+...  .....+|+|.|..|+|||||++.+..-.
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34344444444333332  3456799999999999999999997765

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.38  E-value=0.0018  Score=52.08  Aligned_cols=25  Identities=36%  Similarity=0.465  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4678999999999999999997643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.37  E-value=0.002  Score=50.44  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|.|.|++|+||||+|+.+....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999998765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.37  E-value=0.0024  Score=49.59  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
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            56799999999999999999998765

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.36  E-value=0.0028  Score=50.05  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|++|+||||+++.+....
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            55789999999999999999998876

>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=96.36  E-value=0.0024  Score=55.19  Aligned_cols=27  Identities=26%  Similarity=0.315  Sum_probs=24.1

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+|+|+|..|+|||||++.+..-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            366899999999999999999998865

>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=96.36  E-value=0.019  Score=52.14  Aligned_cols=91  Identities=18%  Similarity=0.303  Sum_probs=52.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHHH----
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEER----  249 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~l----  249 (287)
                      ..++|+|..|+|||||++.+.... .. .+-+.++++.+.+..+ ..++.+++...-....    ....+.+....    
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~-~~-~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNI-AQ-EHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHH-HH-HTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhh-hh-ccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            468899999999999999988765 22 2334567778887653 3345555543200000    00011111111    


Q ss_pred             --HHHHHHHh---CCCcEEEEEeCCCC
Q 043249          250 --ASDITNTL---KHKKFVLLSDDIWE  271 (287)
Q Consensus       250 --~~~l~~~l---~~kr~LlVLDDvw~  271 (287)
                        .-.+.+++   +++..||++||+..
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence              11334443   58999999999965

>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=96.33  E-value=0.025  Score=48.10  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.++.|+|.+|+|||||++.+....
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999988765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.33  E-value=0.003  Score=50.55  Aligned_cols=26  Identities=23%  Similarity=0.344  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
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            56789999999999999999998754

>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=96.33  E-value=0.028  Score=51.04  Aligned_cols=110  Identities=15%  Similarity=0.209  Sum_probs=65.9

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCC------C-
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFS------T-  238 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~------~-  238 (287)
                      +++.|..=. +-.-++|+|..|+|||+|++.+.+..  .+.+-+.++++-+.+... ..++.+++...-...      . 
T Consensus       143 ~ID~l~pig-kGQr~~Ifgg~G~GKT~L~~~i~~~~--~~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rt  219 (482)
T 2ck3_D          143 VVDLLAPYA-KGGKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKV  219 (482)
T ss_dssp             HHHHHSCEE-TTCEEEEEECTTSSHHHHHHHHHHHT--TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             EEecccccc-cCCeeeeecCCCCChHHHHHHHHHhh--HhhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceE
Confidence            444454311 45678999999999999999998763  234557788888888654 445677776642221      0 


Q ss_pred             ---CCCCCCCHHH------HHHHHHHHh---CCCcEEEEEeCCCCcccccccc
Q 043249          239 ---DSWQGKSFEE------RASDITNTL---KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       239 ---~~~~~~~~~~------l~~~l~~~l---~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         ....+.....      ..-.+.+++   +++..||++||+..-...+..+
T Consensus       220 vvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A~A~rEi  272 (482)
T 2ck3_D          220 ALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEV  272 (482)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHh
Confidence               0011222211      112244444   3799999999996522334444

>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=96.32  E-value=0.0025  Score=51.40  Aligned_cols=26  Identities=19%  Similarity=0.447  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||++.+..-.
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            45799999999999999999997653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.32  E-value=0.0026  Score=53.26  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|+|+.|+||||||+.+....
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            478999999999999999998765

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.29  E-value=0.003  Score=50.69  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>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=96.29  E-value=0.0023  Score=51.48  Aligned_cols=22  Identities=41%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+|+|.|+.|+||||+++.+..
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            4799999999999999999954

>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=96.29  E-value=0.0028  Score=52.90  Aligned_cols=26  Identities=19%  Similarity=0.315  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|.|+.|+||||+|+.+....
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            56799999999999999999997754

>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=96.28  E-value=0.0022  Score=50.49  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|++|+||||+|+.+....
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            468999999999999999997754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.26  E-value=0.003  Score=49.71  Aligned_cols=25  Identities=20%  Similarity=0.308  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|.+.|+.|+||||+++.+....
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998754

>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=96.26  E-value=0.0055  Score=53.88  Aligned_cols=39  Identities=21%  Similarity=0.391  Sum_probs=30.2

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+.+.+.....+..+|+|+|.+|+|||||+..+....
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            455555565444478899999999999999999987654

>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=96.24  E-value=0.0035  Score=50.18  Aligned_cols=26  Identities=27%  Similarity=0.298  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998765

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.24  E-value=0.0025  Score=52.00  Aligned_cols=26  Identities=38%  Similarity=0.565  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998753

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.23  E-value=0.0031  Score=50.15  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|+.|+||||+|+.+....
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            4689999999999999999998865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.22  E-value=0.0034  Score=52.13  Aligned_cols=26  Identities=23%  Similarity=0.344  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|.|..|+|||||++.+....
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            55799999999999999999997753

>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=96.21  E-value=0.0034  Score=52.70  Aligned_cols=26  Identities=31%  Similarity=0.483  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|++|+||||+|+.+....
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998864

>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=96.19  E-value=0.0034  Score=49.50  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998765

>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=96.19  E-value=0.0056  Score=55.41  Aligned_cols=48  Identities=21%  Similarity=0.301  Sum_probs=37.1

Q ss_pred             CcccchHHHHHHHHHHHhcc------------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ------------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++.++.+...+...            +...+-|.++|++|+||||+|+.+....
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            46899998888887666321            1134568899999999999999998865

>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=96.18  E-value=0.0034  Score=54.08  Aligned_cols=26  Identities=23%  Similarity=0.563  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+|||||++.+..-.
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            46799999999999999999997654

>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=96.17  E-value=0.0029  Score=49.13  Aligned_cols=24  Identities=25%  Similarity=0.319  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|+.|+||||+|+.+....
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            468999999999999999998765

>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=96.16  E-value=0.004  Score=48.20  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            55799999999999999999998753

>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=96.16  E-value=0.004  Score=50.18  Aligned_cols=33  Identities=18%  Similarity=0.284  Sum_probs=26.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV  211 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~  211 (287)
                      +..+|.|.|+.|+||||+++.+.... . ..+++.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l-~-~~~~~v   40 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL-C-AAGHRA   40 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH-H-HTTCCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-H-HcCCcE
Confidence            35689999999999999999998875 2 234554

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.15  E-value=0.0037  Score=52.18  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+|+|+|+.|+||||+++.+...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4569999999999999999999743

>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=96.14  E-value=0.0039  Score=48.82  Aligned_cols=26  Identities=23%  Similarity=0.226  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.|+|..|+|||||+..+....
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            46799999999999999999998865

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=96.14  E-value=0.043  Score=47.62  Aligned_cols=41  Identities=7%  Similarity=0.227  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          161 ESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       161 ~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++..+.+.+.+..+ .-.+.+-++|+.|+||||+|+.+.+..
T Consensus         8 ~~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l   48 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYL   48 (334)
T ss_dssp             HHHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHH
Confidence            44566666666554 134568899999999999999998765

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.14  E-value=0.0023  Score=50.24  Aligned_cols=26  Identities=27%  Similarity=0.416  Sum_probs=18.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999997765

>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=96.13  E-value=0.014  Score=47.32  Aligned_cols=57  Identities=21%  Similarity=0.232  Sum_probs=36.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc---C-CCCEEEEEEecCCCCHHHHHHHHHHHhC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE---H-DFDVVIWSVVSREPNLMQIQEDIGKRIG  235 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~---~-~F~~~~wv~vs~~~~~~~i~~~i~~~~~  235 (287)
                      .-.+++|+|..|+|||||++.+.... ...   . .-...+|+.-...+.... ...+.+..+
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~-~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~   84 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRG   84 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcC
Confidence            45799999999999999999998743 111   1 134577777555444433 233444443

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.12  E-value=0.0037  Score=49.38  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=21.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|+.|+||||+++.+....
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

>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=96.11  E-value=0.004  Score=50.03  Aligned_cols=26  Identities=15%  Similarity=0.356  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.|+|+.|+|||||++.+....
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            56789999999999999999998754

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.11  E-value=0.0041  Score=50.02  Aligned_cols=33  Identities=21%  Similarity=0.310  Sum_probs=26.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV  211 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~  211 (287)
                      ...+|.|.|+.|+||||+++.+.... . ..+++.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l-~-~~~~~~   41 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYL-K-NNNVEV   41 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHH-H-HTTCCE
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcE
Confidence            45689999999999999999998865 3 235555

>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=96.10  E-value=0.028  Score=51.29  Aligned_cols=93  Identities=18%  Similarity=0.302  Sum_probs=61.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC------C-----CCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST------D-----SWQGK  244 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~------~-----~~~~~  244 (287)
                      +-.-++|+|..|+|||+|++.+.+..  .+.|-++++++-+.+... ..++.+++...-....      .     ...+.
T Consensus       164 kGqr~gIfgg~GvGKT~L~~~l~~~~--a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~  241 (498)
T 1fx0_B          164 RGGKIGLFGGAGVGKTVLIMELINNI--AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  241 (498)
T ss_dssp             TTCCEEEEECSSSSHHHHHHHHHHHT--TTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTS
T ss_pred             cCCeEEeecCCCCCchHHHHHHHHHH--HhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCC
Confidence            45677999999999999999998863  244567889999988764 4466777765422210      0     00112


Q ss_pred             CHH------HHHHHHHHHhC---CCcEEEEEeCCCC
Q 043249          245 SFE------ERASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       245 ~~~------~l~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                      ...      ...-.+.++++   ++..||++||+..
T Consensus       242 p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          242 PPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             CHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence            211      12334566665   5899999999965

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.09  E-value=0.004  Score=48.11  Aligned_cols=23  Identities=26%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|+.|+||||+|+.+....
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            58899999999999999998865

>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=96.09  E-value=0.0042  Score=50.51  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|.|+.|+||||+++.+....
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34678999999999999999998865

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.08  E-value=0.0094  Score=57.84  Aligned_cols=48  Identities=23%  Similarity=0.427  Sum_probs=38.2

Q ss_pred             CcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+.+.+...       ......+-++|++|+|||+||+.+.+..
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            45799999998888877642       1123378999999999999999998875

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.03  E-value=0.0034  Score=50.11  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|+|..|+|||||++.+....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            368999999999999999998765

>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=96.03  E-value=0.0048  Score=49.35  Aligned_cols=26  Identities=35%  Similarity=0.607  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|.|+.|+||||+++.+....
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            67899999999999999999997753

>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=96.02  E-value=0.0044  Score=50.69  Aligned_cols=26  Identities=15%  Similarity=0.255  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45799999999999999999998864

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.01  E-value=0.0098  Score=51.53  Aligned_cols=26  Identities=38%  Similarity=0.547  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|.+|+||||++..+....
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            56899999999999999999987765

>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=96.00  E-value=0.0023  Score=51.63  Aligned_cols=24  Identities=33%  Similarity=0.671  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|+|.|..|+||||+++.+....
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            368999999999999999998765

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.00  E-value=0.0045  Score=50.63  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +...|.|.|+.|+||||+++.+....
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999998754

>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=96.00  E-value=0.005  Score=48.25  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.99  E-value=0.0042  Score=51.57  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      . .+++|+|..|+|||||.+.+..-
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCC
Confidence            6 89999999999999999999753

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.99  E-value=0.0054  Score=49.56  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.97  E-value=0.0048  Score=53.03  Aligned_cols=26  Identities=31%  Similarity=0.525  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+||||+++.+....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999987754

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.95  E-value=0.0053  Score=49.00  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|.|.|+.|+||||+++.+....
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            4689999999999999999997753

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=95.94  E-value=0.0052  Score=52.95  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+|..|+|||||++.+..-.
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            56799999999999999999998754

>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=95.94  E-value=0.01  Score=52.63  Aligned_cols=39  Identities=18%  Similarity=0.145  Sum_probs=28.8

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++-+.-.-....+++|+|+.|+|||||++.+....
T Consensus       155 ~~~~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          155 VYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             HHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcccccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            344444443333356799999999999999999998754

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.93  E-value=0.0057  Score=49.60  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999955

>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=95.93  E-value=0.014  Score=56.66  Aligned_cols=94  Identities=19%  Similarity=0.235  Sum_probs=58.1

Q ss_pred             CcccchHHHHHHHHHHHhcc-----------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH
Q 043249          155 RTIVGQESILDQVWRCITEQ-----------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  223 (287)
                      .++.|.++.++.|.+.+.-.           -...+-+-++|++|+|||.||+++.+..   ..     -++.++.    
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~-----~f~~v~~----  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QA-----NFISIKG----  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TC-----EEEECCH----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CC-----ceEEecc----
Confidence            45678888888877665321           1234456799999999999999999865   22     2233331    


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      .    +++..       +-..++..+...+...-+...++|++|++..
T Consensus       545 ~----~l~s~-------~vGese~~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          545 P----ELLTM-------WFGESEANVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             H----HHHTT-------TCSSCHHHHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             c----hhhcc-------ccchHHHHHHHHHHHHHHcCCceeechhhhH
Confidence            1    22221       1223444444444444456789999999864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.92  E-value=0.005  Score=50.13  Aligned_cols=26  Identities=19%  Similarity=0.241  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|.|+.|+||||+++.+....
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34678999999999999999998866

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.92  E-value=0.0047  Score=51.04  Aligned_cols=24  Identities=25%  Similarity=0.531  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457899999999999999999865

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.91  E-value=0.093  Score=48.24  Aligned_cols=26  Identities=27%  Similarity=0.466  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|.+|+||||++..+....
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            56799999999999999999987654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.90  E-value=0.0051  Score=52.27  Aligned_cols=23  Identities=26%  Similarity=0.599  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            56789999999999999999997

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.90  E-value=0.0072  Score=57.10  Aligned_cols=44  Identities=20%  Similarity=0.343  Sum_probs=36.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.+..++.+...+..+    ..+.|+|..|+||||||+.+....
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccC
Confidence            34789988888777666654    588999999999999999998865

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.90  E-value=0.0043  Score=50.91  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999999875

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.90  E-value=0.0027  Score=49.86  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|+|..|+|||||++.+..-.
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            589999999999999999998765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.89  E-value=0.03  Score=59.33  Aligned_cols=86  Identities=19%  Similarity=0.196  Sum_probs=56.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      ..+++-|+|++|+||||||.++....   ..+=..++|+.+...++...     ++.++..-..+   .....++....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea---~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH---HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            56799999999999999999987765   22223567888887777666     44555321111   112334455555


Q ss_pred             HHHhC-CCcEEEEEeCCC
Q 043249          254 TNTLK-HKKFVLLSDDIW  270 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw  270 (287)
                      ++..+ .+.-+||+|.+-
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            55544 567899999984

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.88  E-value=0.0054  Score=49.57  Aligned_cols=23  Identities=39%  Similarity=0.538  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|+.|+||||+|+.+....
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            47899999999999999997765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.85  E-value=0.012  Score=53.95  Aligned_cols=26  Identities=31%  Similarity=0.556  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+|||||++.+....
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            56799999999999999999998765

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.82  E-value=0.0049  Score=49.08  Aligned_cols=24  Identities=38%  Similarity=0.553  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.|+|+.|+|||||++.+....
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            347799999999999999998754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.82  E-value=0.005  Score=51.44  Aligned_cols=25  Identities=36%  Similarity=0.380  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|+|+.|+||||+++.+....
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            4689999999999999999998754

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.81  E-value=0.0056  Score=50.69  Aligned_cols=26  Identities=23%  Similarity=0.497  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||++.+..-.
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            45799999999999999999997643

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.78  E-value=0.006  Score=49.35  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|++|+||||+|+.+....
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            47899999999999999997754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.77  E-value=0.0058  Score=51.38  Aligned_cols=25  Identities=32%  Similarity=0.561  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5579999999999999999998653

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.77  E-value=0.029  Score=49.68  Aligned_cols=112  Identities=14%  Similarity=0.098  Sum_probs=59.0

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH-HHHHHHHHHhCCCCCCCC
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM-QIQEDIGKRIGFSTDSWQ  242 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~-~i~~~i~~~~~~~~~~~~  242 (287)
                      --++++.|..=. +-.-++|+|..|+|||+|++.+.+........+.| +++-+.+..... ++.+++...+-.  .. .
T Consensus       162 GiraID~l~Pig-rGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER~~EV~d~~~~~~G~VV~--at-a  236 (427)
T 3l0o_A          162 STRLIDLFAPIG-KGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDERPEEVTDIRESTNAIVIA--AP-F  236 (427)
T ss_dssp             HHHHHHHHSCCB-TTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCCHHHHSSSSSSCCSEEEE--CC-T
T ss_pred             cchhhhhccccc-CCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccCcchHHHHHHHhCCeEEE--EC-C
Confidence            345666665422 45677999999999999999888764111233444 467777653211 111111100000  01 1


Q ss_pred             CCCHHH-H-----HHHHHHHh--CCCcEEEEEeCCCCccccccccc
Q 043249          243 GKSFEE-R-----ASDITNTL--KHKKFVLLSDDIWESEIDLTKLG  280 (287)
Q Consensus       243 ~~~~~~-l-----~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i~  280 (287)
                      +..... .     .-.+.+++  +++..||++||+..-...+..+.
T Consensus       237 dep~~~r~~~a~~altiAEyfrd~G~dVLil~DslTR~A~A~rEvs  282 (427)
T 3l0o_A          237 DMPPDKQVKVAELTLEMAKRLVEFNYDVVILLDSLTRLARVYNIVV  282 (427)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHH
Confidence            111111 1     11233343  48999999999976233455543

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.76  E-value=0.0039  Score=51.17  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=17.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      ...+++|+|+.|+|||||++.+.
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999998

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.74  E-value=0.03  Score=44.90  Aligned_cols=25  Identities=20%  Similarity=0.234  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|+.|+||||+++.+....
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            4689999999999999999998865

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.72  E-value=0.0071  Score=49.91  Aligned_cols=26  Identities=15%  Similarity=0.397  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+++.+....
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998765

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.72  E-value=0.0059  Score=50.96  Aligned_cols=25  Identities=32%  Similarity=0.442  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
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            4568999999999999999999873

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.71  E-value=0.0044  Score=50.28  Aligned_cols=24  Identities=33%  Similarity=0.260  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -.+++|+|..|+|||||++.+..-
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            368999999999999999999764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.71  E-value=0.0071  Score=53.27  Aligned_cols=26  Identities=31%  Similarity=0.525  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+||||+++.+....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            46799999999999999999987754

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.70  E-value=0.0056  Score=51.90  Aligned_cols=24  Identities=29%  Similarity=0.628  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHc
Confidence            457899999999999999999865

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.69  E-value=0.018  Score=47.29  Aligned_cols=32  Identities=34%  Similarity=0.610  Sum_probs=26.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV  211 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~  211 (287)
                      ....|.|.|+.|+||||+++.+.... ..  .++.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l-~~--~~~~   56 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL-VK--DYDV   56 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH-TT--TSCE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH-hc--CCCc
Confidence            45789999999999999999999987 32  4554

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.68  E-value=0.0059  Score=50.64  Aligned_cols=25  Identities=36%  Similarity=0.529  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999753

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.68  E-value=0.0058  Score=51.21  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            457899999999999999999865

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.67  E-value=0.006  Score=50.22  Aligned_cols=26  Identities=27%  Similarity=0.503  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||.+.+..-.
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            45789999999999999999997643

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.65  E-value=0.0069  Score=50.98  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            5579999999999999999998753

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.65  E-value=0.0074  Score=50.11  Aligned_cols=24  Identities=33%  Similarity=0.534  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            557999999999999999999865

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.64  E-value=0.0075  Score=50.87  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
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            5579999999999999999999874

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.64  E-value=0.0073  Score=47.85  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..-.++|+|..|+|||||.+.+....
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCC
Confidence            34678999999999999999998753

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.63  E-value=0.0062  Score=51.37  Aligned_cols=24  Identities=29%  Similarity=0.621  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999999865

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.63  E-value=0.0079  Score=47.29  Aligned_cols=26  Identities=31%  Similarity=0.417  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.|+|..|+|||||++.+....
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            36789999999999999999998765

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.63  E-value=0.0079  Score=48.10  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=21.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|+|.|+.|+||||+++.+....
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            89999999999999999997754

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.62  E-value=0.0055  Score=49.90  Aligned_cols=25  Identities=40%  Similarity=0.688  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4468999999999999999999764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.61  E-value=0.0064  Score=50.65  Aligned_cols=25  Identities=36%  Similarity=0.597  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999999653

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.58  E-value=0.0092  Score=50.13  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhC
Confidence            55799999999999999999987643

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.57  E-value=0.016  Score=46.70  Aligned_cols=40  Identities=10%  Similarity=0.115  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+..+..++..-. +...+.|+|++|+||||+|..+.+..
T Consensus        43 ~f~~~l~~~~~~iP-kkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           43 TFLGALKSFLKGTP-KKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHHTCT-TCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-cccEEEEECCCCCCHHHHHHHHHHHh
Confidence            33555555555322 33468999999999999999998865

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.56  E-value=0.016  Score=50.61  Aligned_cols=36  Identities=19%  Similarity=0.378  Sum_probs=27.2

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+++-+.-.-....+++|+|..|+|||||.+.+..-
T Consensus        43 ~~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           43 DLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             HHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            344444433346789999999999999999999754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.56  E-value=0.0078  Score=50.53  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4579999999999999999999753

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.55  E-value=0.0078  Score=50.86  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5579999999999999999999753

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.55  E-value=0.008  Score=50.38  Aligned_cols=25  Identities=40%  Similarity=0.620  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4579999999999999999999753

>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=95.55  E-value=0.014  Score=50.12  Aligned_cols=25  Identities=16%  Similarity=0.255  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            5679999999999999999998764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.54  E-value=0.0087  Score=48.57  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|.|.|++|+||||+|+.+....
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            468899999999999999998865

>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=95.51  E-value=0.01  Score=48.66  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|.|+.|+||||+|+.+....
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999999999999999998865

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.51  E-value=0.0091  Score=48.26  Aligned_cols=23  Identities=30%  Similarity=0.273  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|+.|+||||+|+.+....
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            47899999999999999998765

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.50  E-value=0.0079  Score=47.84  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.|+|+|..|+|||||.+.+...
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            356899999999999999999875

>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=95.50  E-value=0.0095  Score=53.45  Aligned_cols=35  Identities=14%  Similarity=0.280  Sum_probs=26.5

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+.+.|..-.....+++|+|..|+|||||.+.+..
T Consensus        57 ~i~~~L~~~~~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           57 AISDALKEIDSSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HHHHHHHHHHHCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             hhhhhhhhcccCCeEEEEECCCCCcHHHHHHHHhC
Confidence            34444433223567999999999999999999987

>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=95.49  E-value=0.0075  Score=50.31  Aligned_cols=25  Identities=36%  Similarity=0.550  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4468999999999999999998764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.49  E-value=0.0091  Score=49.67  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.+.|.||+||||++..+....
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            56788999999999999999998655

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.48  E-value=0.0087  Score=50.42  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4579999999999999999998753

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.47  E-value=0.0095  Score=48.61  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=20.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|+.|+||||+++.+....
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            57899999999999999998765

>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=95.47  E-value=0.013  Score=56.77  Aligned_cols=49  Identities=22%  Similarity=0.354  Sum_probs=38.3

Q ss_pred             CCcccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.+..++.+...+...       ......+.++|.+|+|||++|+.+.+..
T Consensus       457 ~~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          457 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            356789999888887776532       1233578999999999999999998865

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.47  E-value=0.023  Score=44.65  Aligned_cols=26  Identities=27%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|+|.+|+|||||...+.+..
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            45678999999999999999987653

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.44  E-value=0.0079  Score=51.08  Aligned_cols=25  Identities=44%  Similarity=0.603  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999998753

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.42  E-value=0.008  Score=50.26  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.41  E-value=0.01  Score=51.76  Aligned_cols=24  Identities=38%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|+|.|+.|+||||||+.+....
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            589999999999999999998865

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.40  E-value=0.15  Score=46.13  Aligned_cols=51  Identities=14%  Similarity=0.105  Sum_probs=34.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      .-.++-|.|.+|+||||||..+.... -..  =..++|++...  +...+...++.
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~-a~~--g~~vl~fSlEm--s~~ql~~R~~~  246 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNM-SDN--DDVVNLHSLEM--GKKENIKRLIV  246 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHH-HHT--TCEEEEECSSS--CTTHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHH-HHc--CCEEEEEECCC--CHHHHHHHHHH
Confidence            45688999999999999999987765 222  13566665443  44455555443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.36  E-value=0.013  Score=48.24  Aligned_cols=27  Identities=26%  Similarity=0.348  Sum_probs=23.2

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+|+|.|+.|+||||+++.+....
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            356789999999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.35  E-value=0.0097  Score=50.26  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|+|..|+|||||.+.++.-.
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            57999999999999999998754

>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=95.32  E-value=0.018  Score=50.22  Aligned_cols=36  Identities=25%  Similarity=0.322  Sum_probs=26.6

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++-+.....+..+|+|+|.+|+|||||+..+....
T Consensus        45 ~~~~l~~~~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           45 LLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             HHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHhCCcccCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            333333333467899999999999999999986543

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.31  E-value=0.086  Score=45.90  Aligned_cols=89  Identities=11%  Similarity=-0.025  Sum_probs=55.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCC-C------------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGF-S------------------  237 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~-~------------------  237 (287)
                      .-.++.|.|.+|+||||||..+.... -.  +=..++|++.  .-+...+...++..... .                  
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~-a~--~g~~Vl~fSl--Ems~~ql~~Rlls~~~~v~~~~l~~g~Ls~~e~~~l~  119 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSA-LN--DDRGVAVFSL--EMSAEQLALRALSDLTSINMHDLESGRLDDDQWENLA  119 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHH-HH--TTCEEEEEES--SSCHHHHHHHHHHHHHCCCHHHHHHTCCCHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HH--cCCeEEEEeC--CCCHHHHHHHHHHHhhCCCHHHHhcCCCCHHHHHHHH
Confidence            44688999999999999999987765 22  2235566554  34566666666543210 0                  


Q ss_pred             ------------CCCCCCCCHHHHHHHHHHHhCC--CcEEEEEeCCC
Q 043249          238 ------------TDSWQGKSFEERASDITNTLKH--KKFVLLSDDIW  270 (287)
Q Consensus       238 ------------~~~~~~~~~~~l~~~l~~~l~~--kr~LlVLDDvw  270 (287)
                                  -......+..++...+++..+.  +.-+||+|-+-
T Consensus       120 ~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~gg~~lIVIDyLq  166 (338)
T 4a1f_A          120 KCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELGIAFIDYLQ  166 (338)
T ss_dssp             HHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCTTEEEEEEEEEE
T ss_pred             HHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcCCCCEEEEechH
Confidence                        0011234667777777665542  56788888654

>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=95.31  E-value=0.0089  Score=46.89  Aligned_cols=21  Identities=43%  Similarity=0.547  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|.|+|.+|+|||||.+.+.+
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            478999999999999999865

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.30  E-value=0.011  Score=45.49  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..|+|+|.+|+|||||.+.+.+.
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            56899999999999999998763

>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=95.27  E-value=0.012  Score=50.21  Aligned_cols=23  Identities=35%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+|.|.|++|+||||+|+.+...
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            57899999999999999999774

>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=95.27  E-value=0.015  Score=45.45  Aligned_cols=25  Identities=44%  Similarity=0.546  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            5567899999999999999998654

>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=95.26  E-value=0.011  Score=44.79  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.++|.+|+|||||...+.+..
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            47899999999999999997653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.24  E-value=0.014  Score=44.22  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.++|.+|+|||||...+.+.
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            45789999999999999998764

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.22  E-value=0.018  Score=52.06  Aligned_cols=90  Identities=12%  Similarity=0.121  Sum_probs=54.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCC----EEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD----VVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEER  249 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~----~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~l  249 (287)
                      .-++|+|..|+|||||+..+.+.. .  .+-+    .++++-+.+... ..++.+++...-....    ....+......
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~-~--~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r  228 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQA-T--VLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIER  228 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHC-B--CSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHH-H--hccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHH
Confidence            446899999999999999998875 3  2223    677888887644 4456666544310100    00112222111


Q ss_pred             ------HHHHHHHhC---CCcEEEEEeCCCC
Q 043249          250 ------ASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       250 ------~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                            .-.+.++++   ++..||++||+..
T Consensus       229 ~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr  259 (465)
T 3vr4_D          229 IATPRMALTAAEYLAYEKGMHVLVIMTDMTN  259 (465)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                  223566664   7899999999965

>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=95.21  E-value=0.013  Score=50.09  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|.+|+||||++..+....
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998765

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.20  E-value=0.013  Score=50.80  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|+|+.|+||||||+.+....
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999998765

>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=95.20  E-value=0.0082  Score=49.26  Aligned_cols=25  Identities=28%  Similarity=0.242  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+|+|.|..|+|||||++.+...
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            5679999999999999999998663

>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=95.18  E-value=0.012  Score=44.85  Aligned_cols=25  Identities=16%  Similarity=0.359  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||...+.+..
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            3457899999999999999998753

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.18  E-value=0.011  Score=49.77  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -.+++|+|..|+|||||.+.+..
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999999975

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.17  E-value=0.24  Score=44.72  Aligned_cols=53  Identities=9%  Similarity=-0.060  Sum_probs=36.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      .-.++.|.|.+|+||||||..+.... -.. +=..++|++..  -+...+...++..
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~-a~~-~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNA-ALK-EGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHH-HHT-TCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-HHh-CCCeEEEEECC--CCHHHHHHHHHHH
Confidence            45688999999999999999987765 211 11346666654  3466666666543

>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=95.14  E-value=0.012  Score=49.80  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.++.|+|.+|+|||||+..+....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999987644

>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=95.14  E-value=0.013  Score=50.08  Aligned_cols=25  Identities=28%  Similarity=0.497  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            5579999999999999999999764

>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=95.13  E-value=0.041  Score=45.43  Aligned_cols=38  Identities=24%  Similarity=0.400  Sum_probs=29.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV  216 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~  216 (287)
                      ....|.|.|..|+||||+++.+.... . ..++.......
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l-~-~~~~~~~~~~r   63 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETL-Q-QNGIDHITRTR   63 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHH-H-HTTCCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-H-hcCCCeeeeec
Confidence            45789999999999999999999877 3 34566344443

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.11  E-value=0.013  Score=50.92  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.|+|+.|+|||||+..+....
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            45799999999999999999997754

>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=95.11  E-value=0.012  Score=46.21  Aligned_cols=25  Identities=48%  Similarity=0.425  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||.+.+.+..
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            3457899999999999998887644

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.10  E-value=0.013  Score=45.75  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...|+++|.+|+|||||...+.+.
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            457899999999999999999874

>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=95.09  E-value=0.015  Score=50.04  Aligned_cols=25  Identities=16%  Similarity=0.373  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|+|+.|+||||||..+....
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            4689999999999999999997654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.07  E-value=0.08  Score=56.19  Aligned_cols=87  Identities=18%  Similarity=0.188  Sum_probs=59.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-.++-|+|.+|+||||||..+.... .  ..=..++|++....++...     ++.++......   ...+.+++...+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~-a--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA-Q--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH-H--TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-H--hcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            55799999999999999999997765 2  2223678888877776542     55566532211   234566666666


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...+ .+.=+||+|-+-.
T Consensus       454 ~~lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGG
T ss_pred             HHHHHhcCCcEEEECCHHH
Confidence            65543 5566999999864

>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=95.06  E-value=0.014  Score=51.25  Aligned_cols=25  Identities=36%  Similarity=0.480  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcC
Confidence            4578999999999999999999753

>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=95.06  E-value=0.013  Score=45.86  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      --|.++|.+|+|||||+..+....
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            467899999999999999998653

>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=95.05  E-value=0.0098  Score=51.18  Aligned_cols=24  Identities=29%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            567999999999999999999865

>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=95.03  E-value=0.013  Score=52.67  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|++|+||||+|+.+....
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            57899999999999999999987654

>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=95.03  E-value=0.017  Score=52.22  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|.+|+||||++..+....
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999987755

>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=95.03  E-value=0.025  Score=55.63  Aligned_cols=47  Identities=28%  Similarity=0.437  Sum_probs=37.2

Q ss_pred             cccchHHHHHHHHHHHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++|.+..++.+...+...       +.....+.|+|..|+|||++|+.+.+..
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            4789998888887776532       1223578999999999999999998865

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.02  E-value=0.018  Score=47.50  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|.|.|..|+||||+++.+....
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            4678999999999999999998865

>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=95.00  E-value=0.028  Score=50.52  Aligned_cols=26  Identities=35%  Similarity=0.387  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||.+.+....
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            56799999999999999999998754

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.99  E-value=0.016  Score=45.33  Aligned_cols=22  Identities=23%  Similarity=0.422  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+..|+|..|+|||||+.+++-
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            4889999999999999999964

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.98  E-value=0.015  Score=44.20  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-|.++|.+|+|||||...+.+..
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            457899999999999999987653

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.98  E-value=0.015  Score=44.25  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998764

>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=94.97  E-value=0.032  Score=46.82  Aligned_cols=38  Identities=18%  Similarity=0.245  Sum_probs=28.6

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..-+..||.....+..-+.++|++|+|||++|..+.+.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            44456666554234556889999999999999999874

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.97  E-value=0.014  Score=51.30  Aligned_cols=25  Identities=36%  Similarity=0.666  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4579999999999999999999753

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.96  E-value=0.0076  Score=51.45  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=19.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|+|.|..|+||||+|+.+....
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            46789999999999999999997754

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.95  E-value=0.029  Score=43.86  Aligned_cols=35  Identities=26%  Similarity=0.548  Sum_probs=25.9

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+.+ +...  +..-|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~~~~-~~~~--~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNH--QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTT--SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCC--CccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 3333  5567889999999999999998753

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.94  E-value=0.016  Score=51.00  Aligned_cols=25  Identities=40%  Similarity=0.603  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcC
Confidence            5579999999999999999999753

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.91  E-value=0.013  Score=45.07  Aligned_cols=24  Identities=33%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346889999999999999998654

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=94.90  E-value=0.017  Score=50.85  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCC
Confidence            4578999999999999999999753

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.88  E-value=0.056  Score=49.95  Aligned_cols=107  Identities=21%  Similarity=0.232  Sum_probs=60.9

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH-HHHHHHHH----HhCCC--C-
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM-QIQEDIGK----RIGFS--T-  238 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~-~i~~~i~~----~~~~~--~-  238 (287)
                      +++.|..=. +-.-++|+|..|+|||+|++.+.+..     +-+.++++-+.+..+.. ++.+++-+    ..+..  . 
T Consensus       217 vID~l~Pig-kGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~r  290 (588)
T 3mfy_A          217 VIDTFFPQA-KGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMER  290 (588)
T ss_dssp             HHHHHSCEE-TTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGG
T ss_pred             hhhccCCcc-cCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHHHHhcccccccccccc
Confidence            444454311 45678999999999999999987643     34688889999876644 45555322    01100  0 


Q ss_pred             ----CCCCCCCHHHH------HHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          239 ----DSWQGKSFEER------ASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       239 ----~~~~~~~~~~l------~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                          ....+......      .-.+.+++  .++..||++|++..-......+
T Consensus       291 tvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~A~A~rEi  343 (588)
T 3mfy_A          291 TVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALREI  343 (588)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTCCCCC---
T ss_pred             eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHHHHHHHHH
Confidence                01112222211      11234444  3899999999997524445554

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.88  E-value=0.014  Score=45.25  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..|+|+|.+|+|||||.+.+...
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            46789999999999999999764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.87  E-value=0.017  Score=50.84  Aligned_cols=25  Identities=32%  Similarity=0.534  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcC
Confidence            4578999999999999999999753

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.86  E-value=0.18  Score=45.61  Aligned_cols=91  Identities=9%  Similarity=0.013  Sum_probs=55.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH-hCCC------------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR-IGFS------------------  237 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~-~~~~------------------  237 (287)
                      .-.++.|.|.+|+|||||+..+.... .... =..++|++...  +...+...++.. .+..                  
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~-~~~~-g~~Vl~~s~E~--s~~~l~~r~~~~~~~~~~~~l~~g~l~~~~~~~~~  277 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNV-ATKT-NENVAIFSLEM--SAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLT  277 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHH-HHHS-SCCEEEEESSS--CHHHHHHHHHHHHHTCCHHHHHTSCCCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-HHhC-CCcEEEEECCC--CHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHH
Confidence            45789999999999999999988765 2211 12566666443  445555554321 1110                  


Q ss_pred             ------------CCCCCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          238 ------------TDSWQGKSFEERASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       238 ------------~~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                                  .......+..++...++.... .+.=+||+|.+-.
T Consensus       278 ~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~~~livID~l~~  324 (454)
T 2r6a_A          278 MAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESGLGMIVIDYLQL  324 (454)
T ss_dssp             HHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTCCCEEEEECGGG
T ss_pred             HHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEccHHH
Confidence                        001123466777777776654 4566899998754

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.86  E-value=0.017  Score=44.17  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999998765

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.85  E-value=0.017  Score=43.81  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999988764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.84  E-value=0.018  Score=43.75  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|.+|+|||||...+.+..
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            6899999999999999987643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.84  E-value=0.019  Score=44.34  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...|.|+|.+|+|||||...+.+.
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            5567899999999999999998764

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.84  E-value=0.028  Score=49.38  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|+.|+|||||.+.+....
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34599999999999999999986643

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.83  E-value=0.0078  Score=56.72  Aligned_cols=48  Identities=15%  Similarity=0.142  Sum_probs=31.9

Q ss_pred             CcccchHHHHHHHHHHHhccCC---------CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKK---------NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~---------~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.+..++.+.-.|..+..         ...-+-++|.+|+|||+||+.+.+..
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            4467777766555444433310         01157899999999999999997654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.83  E-value=0.015  Score=44.40  Aligned_cols=23  Identities=26%  Similarity=0.608  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|.+|+|||||...+.+.
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            35789999999999999998764

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=94.81  E-value=0.016  Score=51.28  Aligned_cols=25  Identities=32%  Similarity=0.470  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcC
Confidence            4578999999999999999999753

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.81  E-value=0.018  Score=44.00  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      --|.|+|.+|+|||||...+.+..
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            357899999999999999987753

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.81  E-value=0.037  Score=46.21  Aligned_cols=39  Identities=18%  Similarity=0.359  Sum_probs=28.2

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++.+.+.....+...|.++|.+|+|||||...+....
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444443455678999999999999999998653

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=94.80  E-value=0.018  Score=50.97  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcC
Confidence            4578999999999999999999753

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.80  E-value=0.016  Score=44.24  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=18.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|.++|.+|+|||||.+.+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            468999999999999998854

>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=94.80  E-value=0.024  Score=48.76  Aligned_cols=26  Identities=27%  Similarity=0.216  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|+|+.|+||||||..+....
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            45789999999999999999998764

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.80  E-value=0.018  Score=43.90  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.++|.+|+|||||...+.+..
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            47899999999999999987653

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.80  E-value=0.017  Score=45.09  Aligned_cols=25  Identities=28%  Similarity=0.254  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998765

>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=94.79  E-value=0.019  Score=50.82  Aligned_cols=25  Identities=32%  Similarity=0.490  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            4579999999999999999999753

>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=94.78  E-value=0.015  Score=50.35  Aligned_cols=25  Identities=40%  Similarity=0.513  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...++.|.|+.|.|||||.+.+...
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            5789999999999999999999864

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.78  E-value=0.016  Score=50.99  Aligned_cols=25  Identities=20%  Similarity=0.417  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|+|..|+|||||++.+..-.
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            5688999999999999999987654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.77  E-value=0.021  Score=50.07  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+|+|+|.+|+|||||...+...
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999999864

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.76  E-value=0.016  Score=44.28  Aligned_cols=21  Identities=33%  Similarity=0.412  Sum_probs=18.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      --|.|+|.+|+|||||...+.
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            347899999999999999985

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.75  E-value=0.023  Score=45.71  Aligned_cols=26  Identities=27%  Similarity=0.240  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|+|.+|+|||||...+.+..
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            55678899999999999999988754

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.74  E-value=0.018  Score=44.40  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|..|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999998775

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.72  E-value=0.018  Score=48.17  Aligned_cols=24  Identities=33%  Similarity=0.711  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|.|-||+||||+|..+....
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            578889999999999999987766

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.72  E-value=0.029  Score=45.92  Aligned_cols=89  Identities=15%  Similarity=0.206  Sum_probs=51.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCC------------C----C
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFST------------D----S  240 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~------------~----~  240 (287)
                      .-.++.|.|.+|+|||||+..+......  . =..++|++...  +...+.+.+. +++...            +    .
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~--~-~~~v~~~~~e~--~~~~~~~~~~-~~g~~~~~~~~~~~l~~~~~~~~~   95 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLK--M-GEPGIYVALEE--HPVQVRQNMA-QFGWDVKPYEEKGMFAMVDAFTAG   95 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHH--T-TCCEEEEESSS--CHHHHHHHHH-TTTCCCHHHHHHTSEEEEECSTTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh--c-CCeEEEEEccC--CHHHHHHHHH-HcCCCHHHHhhCCcEEEEecchhh
Confidence            4568999999999999998877554311  1 12456666544  3455544332 222210            0    0


Q ss_pred             ------------CCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          241 ------------WQGKSFEERASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       241 ------------~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                                  ....+..++...+.+.+. .+.-++|+|.+-.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vviD~~~~  139 (247)
T 2dr3_A           96 IGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVVVDSVTT  139 (247)
T ss_dssp             TCC--CCCSCBCSCCSSHHHHHHHHHHHHHHHTCCEEEEETSGG
T ss_pred             cccccccccccccCccCHHHHHHHHHHHHHHhCCCEEEECCchH
Confidence                        012345566666666654 2344799998865

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.72  E-value=0.019  Score=44.37  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4556899999999999999988764

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.71  E-value=0.019  Score=45.07  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999877654

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.70  E-value=0.078  Score=55.49  Aligned_cols=87  Identities=18%  Similarity=0.188  Sum_probs=58.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-+++-|+|.+|+||||||..+.... .  ..=..++|++....++...     ++.++......   ...+.+++...+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~-~--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA-Q--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-H--HTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH-H--HhCCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            45799999999999999999987765 2  1224688888888776642     55565432111   233556666666


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ .+.-+||+|-+-.
T Consensus       454 ~~lv~~~~~~lVVIDSL~a  472 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAA  472 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHhcCCCEEEECCHHH
Confidence            65543 4566999999865

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.69  E-value=0.019  Score=44.19  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999998764

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=94.69  E-value=0.02  Score=43.65  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|.+|+|||||...+.+.
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            45789999999999999998764

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.68  E-value=0.021  Score=44.84  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...|.|+|.+|+|||||...+.+.
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            5667899999999999999998754

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.67  E-value=0.31  Score=44.69  Aligned_cols=91  Identities=13%  Similarity=0.075  Sum_probs=54.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh-CCCC-----------------
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI-GFST-----------------  238 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~-~~~~-----------------  238 (287)
                      .-.++.|.|.+|+||||||..+.... - ..+=..++|++...  +..++...++... +...                 
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~-a-~~~g~~vl~~s~E~--s~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~  316 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQW-G-TAMGKKVGLAMLEE--SVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFD  316 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHH-T-TTSCCCEEEEESSS--CHHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHH-H-HhcCCcEEEEeccC--CHHHHHHHHHHHHcCCChhhccccccCCCCHHHHH
Confidence            45788999999999999999987765 2 11123566766544  4666666554432 1110                 


Q ss_pred             ---------------CCCCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          239 ---------------DSWQGKSFEERASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       239 ---------------~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                                     ......+.+++...+++..+ .+-=+||+|-+-.
T Consensus       317 ~~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~~~~~lvVID~l~~  365 (503)
T 1q57_A          317 QWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISI  365 (503)
T ss_dssp             HHHHHHHTTTCEEEECCC---CHHHHHHHHHHHHHTTCCSEEEEECTTC
T ss_pred             HHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEccchh
Confidence                           00112456677766666543 3455889998754

>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=94.66  E-value=0.021  Score=44.30  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +..-|.|+|.+|+|||||...+.+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            556788999999999999998864

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.66  E-value=0.02  Score=43.67  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=94.63  E-value=0.015  Score=50.87  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcC
Confidence            4578999999999999999999764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.63  E-value=0.02  Score=44.18  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
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            345789999999999999998754

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=94.63  E-value=0.021  Score=44.02  Aligned_cols=26  Identities=31%  Similarity=0.241  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-|.|+|.+|+|||||...+.+..
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            34568899999999999999987653

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.63  E-value=0.16  Score=46.29  Aligned_cols=98  Identities=13%  Similarity=0.170  Sum_probs=57.3

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCC-EEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFD-VVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEER  249 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~-~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~l  249 (287)
                      +-.-++|+|..|+|||+|| ..+.+..     +-+ .++++-+++... ..++.+++...-....    ....+......
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r  235 (502)
T 2qe7_A          161 RGQRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLL  235 (502)
T ss_dssp             TTCBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHH
T ss_pred             cCCEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHH
Confidence            3456789999999999995 5776643     345 457888888654 3456666655322110    00112222111


Q ss_pred             ------HHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          250 ------ASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       250 ------~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                            .-.+.++++  ++..||++||+..-...+..+
T Consensus       236 ~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A~A~REi  273 (502)
T 2qe7_A          236 YLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYREL  273 (502)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEecHHHHHHHHHHH
Confidence                  123445554  799999999996523344444

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=94.62  E-value=0.017  Score=49.60  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |+|+|..|+|||||.+.++..
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

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.61  E-value=0.073  Score=43.13  Aligned_cols=53  Identities=17%  Similarity=0.196  Sum_probs=33.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      ...|.+-|..|+||||+++.+.... . ...+..+.+..-.......+.+++++.
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l-~-~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETL-E-QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHH-H-HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-H-HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            3578999999999999999999877 4 234533333332222223445555554

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.60  E-value=0.044  Score=45.92  Aligned_cols=39  Identities=21%  Similarity=0.348  Sum_probs=27.7

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++++.+...+.....|.++|.+|+|||||...+.+..
T Consensus        25 l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           25 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444443345678899999999999999998653

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.60  E-value=0.013  Score=46.79  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ....|+|+|..|+|||||.+.+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999998754

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.59  E-value=0.023  Score=50.21  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++|+|..|+|||||++.+....
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            45799999999999999999987643

>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=94.59  E-value=0.025  Score=45.17  Aligned_cols=25  Identities=28%  Similarity=0.301  Sum_probs=20.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.--|.|+|.+|+|||||...+.+.
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHhC
Confidence            4456789999999999999888764

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.57  E-value=0.021  Score=45.00  Aligned_cols=24  Identities=38%  Similarity=0.618  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...|.++|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.56  E-value=0.022  Score=44.28  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998865

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.56  E-value=0.022  Score=44.80  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=20.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhC
Confidence            3456789999999999999888764

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.56  E-value=0.02  Score=46.20  Aligned_cols=25  Identities=32%  Similarity=0.398  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999987643

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.56  E-value=0.024  Score=44.36  Aligned_cols=25  Identities=28%  Similarity=0.555  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|.|+|..|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            4457889999999999999998775

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.55  E-value=0.021  Score=49.97  Aligned_cols=26  Identities=35%  Similarity=0.529  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-.+++|+|..|+|||||.+.+.+..
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            55799999999999999999999875

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=94.55  E-value=0.022  Score=44.36  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      --|.|+|.+|+|||||...+.+..
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            357899999999999999998653

>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=94.53  E-value=0.036  Score=51.09  Aligned_cols=45  Identities=11%  Similarity=0.035  Sum_probs=32.4

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+.+..+.+.+..-...++..+|.+.|+.|+||||+|+.+....
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            444445555555442223356789999999999999999999987

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.53  E-value=0.085  Score=42.73  Aligned_cols=34  Identities=24%  Similarity=0.337  Sum_probs=26.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEE
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVV  212 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~  212 (287)
                      ....|.|-|..|+||||+++.+.... . ...+.+.
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l-~-~~~~~v~   38 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERL-R-ERGIEVQ   38 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH-H-TTTCCEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCCcc
Confidence            34688999999999999999998876 3 2345553

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.50  E-value=0.021  Score=44.50  Aligned_cols=25  Identities=32%  Similarity=0.248  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||...+.+..
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            4567899999999999999987653

>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=94.50  E-value=0.057  Score=49.05  Aligned_cols=40  Identities=28%  Similarity=0.415  Sum_probs=29.4

Q ss_pred             hHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          160 QESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       160 r~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....+..+...+..+  . +.+.|.|.+|+||||++..+....
T Consensus        30 Q~~av~~~~~~i~~~--~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           30 QKNAFNIVMKAIKEK--K-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHHSS--S-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC--C-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344455555555544  2 388999999999999999998876

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=94.49  E-value=0.023  Score=44.69  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--|.|+|..|+|||||...+.+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCC
Confidence            34567899999999999999987743

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.48  E-value=0.02  Score=44.11  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
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            4456789999999999999998654

>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=94.47  E-value=0.034  Score=47.66  Aligned_cols=33  Identities=24%  Similarity=0.390  Sum_probs=25.3

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++.+.+.     -.+++++|..|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            444555443     3588999999999999999998 43

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=94.46  E-value=0.019  Score=44.75  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||...+.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998764

>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=94.45  E-value=0.014  Score=51.27  Aligned_cols=25  Identities=32%  Similarity=0.578  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999999753

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.45  E-value=0.022  Score=48.25  Aligned_cols=24  Identities=33%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|.|-||+||||+|..+....
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~L   26 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHH
Confidence            688899999999999999987765

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=94.45  E-value=0.024  Score=44.29  Aligned_cols=24  Identities=29%  Similarity=0.282  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999999864

>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=94.45  E-value=0.025  Score=44.48  Aligned_cols=26  Identities=19%  Similarity=0.194  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--|.|+|.+|+|||||...+.+..
T Consensus        22 ~~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           22 YMFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             ECEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeeEEEEECCCCcCHHHHHHHHhcCC
Confidence            34567899999999999999988754

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=94.43  E-value=0.017  Score=45.82  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      ...-|.|+|.+|+|||||...+.
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            45678999999999999999984

>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=94.43  E-value=0.025  Score=50.30  Aligned_cols=24  Identities=38%  Similarity=0.522  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            567999999999999999999975

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.41  E-value=0.022  Score=43.81  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|..|+|||||...+.+.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998754

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=94.40  E-value=0.025  Score=43.79  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
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            345789999999999999998764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=94.40  E-value=0.025  Score=43.90  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.++|.+|+|||||...+.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999988754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.39  E-value=0.14  Score=40.90  Aligned_cols=87  Identities=16%  Similarity=0.111  Sum_probs=44.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASDITNTL  257 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~l~~~l  257 (287)
                      |.|=|.-|+||||.++.+.+.. +.. ... +++..-.......+..+.++..-......   .-..+-.+....+...|
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L-~~~-g~~-v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~L   79 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYL-EKR-GKK-VILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQYL   79 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH-HHT-TCC-EEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH-HHC-CCc-EEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777999999999999999887 322 233 33333332223334444444332110000   00001122334566666


Q ss_pred             CCCcEEEEEeCCCC
Q 043249          258 KHKKFVLLSDDIWE  271 (287)
Q Consensus       258 ~~kr~LlVLDDvw~  271 (287)
                      ...+ .+|.|--..
T Consensus        80 ~~g~-~Vi~DRy~~   92 (197)
T 3hjn_A           80 SEGY-AVLLDRYTD   92 (197)
T ss_dssp             TTTC-EEEEESCHH
T ss_pred             HCCC-eEEecccch
Confidence            6554 567776543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=94.39  E-value=0.025  Score=43.86  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-|.|+|.+|+|||||...+.+..
T Consensus        17 ~~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           17 ALHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCC
Confidence            34567899999999999999987643

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.38  E-value=0.02  Score=45.50  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..-|.++|.+|+|||||...+.+
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999999864

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=94.38  E-value=0.025  Score=43.70  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999998765

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=94.37  E-value=0.021  Score=45.22  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=20.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.++|.+|+|||||.+.+.+.
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhc
Confidence            4456789999999999999987664

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=94.37  E-value=0.025  Score=43.80  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999998854

>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=94.36  E-value=0.025  Score=44.71  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .--|.|+|.+|+|||||...+.+
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999998864

>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=94.35  E-value=0.025  Score=44.62  Aligned_cols=25  Identities=24%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998765

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.35  E-value=0.043  Score=49.57  Aligned_cols=93  Identities=10%  Similarity=0.185  Sum_probs=54.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhcccc--------CCCC-EEEEEEecCCCC-HHHHHHHHHHHhCCC-----CCCCC
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEE--------HDFD-VVIWSVVSREPN-LMQIQEDIGKRIGFS-----TDSWQ  242 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~--------~~F~-~~~wv~vs~~~~-~~~i~~~i~~~~~~~-----~~~~~  242 (287)
                      -.-++|+|..|+|||||+..+.+.. ...        ++=+ .++++-+.+... ..++.+++...-...     ....+
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~-~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d  225 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQA-TVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKAD  225 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHC-BCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETT
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHH-HhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCC
Confidence            3456899999999999999998875 321        1222 677788887644 345555544321000     00111


Q ss_pred             CCCHHHH-----HHHHHHHhC---CCcEEEEEeCCCC
Q 043249          243 GKSFEER-----ASDITNTLK---HKKFVLLSDDIWE  271 (287)
Q Consensus       243 ~~~~~~l-----~~~l~~~l~---~kr~LlVLDDvw~  271 (287)
                      .......     .-.+.++++   ++..||++||+..
T Consensus       226 ~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr  262 (464)
T 3gqb_B          226 DPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTN  262 (464)
T ss_dssp             SCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence            1122111     223566654   6899999999965

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=94.34  E-value=0.023  Score=45.00  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4456889999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.33  E-value=0.026  Score=44.83  Aligned_cols=26  Identities=23%  Similarity=0.240  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-|.|+|.+|+|||||...+.+..
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            45667899999999999999988753

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.33  E-value=0.035  Score=42.37  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999999764

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=94.32  E-value=0.019  Score=44.46  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.++|.+|+|||||...+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=94.32  E-value=0.026  Score=44.81  Aligned_cols=26  Identities=35%  Similarity=0.359  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--|.|+|.+|+|||||...+.+..
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            44568999999999999999987653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.32  E-value=0.019  Score=50.55  Aligned_cols=26  Identities=35%  Similarity=0.459  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999998754

>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=94.31  E-value=0.027  Score=43.51  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.++|..|+|||||...+.+..
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            3467899999999999999987654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.31  E-value=0.058  Score=44.07  Aligned_cols=55  Identities=20%  Similarity=0.157  Sum_probs=34.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      ....|.|.|..|+||||+++.+.+.. .....+++.....-.......+.+++++.
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l-~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYL-SEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH-HHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            56789999999999999999998876 32123444331222222223344555554

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.31  E-value=0.031  Score=52.05  Aligned_cols=26  Identities=23%  Similarity=0.436  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++.|+|+.|+|||||++.+....
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            45789999999999999999998875

>1fx0_A ATP synthase alpha 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_A*

Probab=94.30  E-value=0.08  Score=48.41  Aligned_cols=90  Identities=10%  Similarity=0.207  Sum_probs=51.2

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCC-EEEEEEecCCCC-HHHHHHHHHHHhCC---------CCCCCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFD-VVIWSVVSREPN-LMQIQEDIGKRIGF---------STDSWQGK  244 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~-~~~wv~vs~~~~-~~~i~~~i~~~~~~---------~~~~~~~~  244 (287)
                      +-.-++|+|..|+|||+|| ..+.+..     .-+ .++++-+++... ..++.+++...-..         .+.+....
T Consensus       162 rGQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r  236 (507)
T 1fx0_A          162 RGQRELIIGDRQTGKTAVATDTILNQQ-----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQ  236 (507)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCC-----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGT
T ss_pred             cCCEEEEecCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHH
Confidence            3456689999999999995 5776643     244 467888888654 33455554432110         00000000


Q ss_pred             CH-HHHHHHHHHHh--CCCcEEEEEeCCCC
Q 043249          245 SF-EERASDITNTL--KHKKFVLLSDDIWE  271 (287)
Q Consensus       245 ~~-~~l~~~l~~~l--~~kr~LlVLDDvw~  271 (287)
                      -. ....-.+.+++  +++..||++||+..
T Consensus       237 ~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  266 (507)
T 1fx0_A          237 YLAPYTGAALAEYFMYRERHTLIIYDDLSK  266 (507)
T ss_dssp             THHHHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence            00 11122233433  48999999999865

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=94.28  E-value=0.082  Score=49.05  Aligned_cols=99  Identities=17%  Similarity=0.232  Sum_probs=57.6

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHH----HhCCCC---
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGK----RIGFST---  238 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~----~~~~~~---  238 (287)
                      +++.|..=. +-.-++|+|..|+|||+|+..+.+..     +-+.++++-+.+..+ ..++++++-+    ..+...   
T Consensus       222 vID~l~Pig-rGqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~r  295 (600)
T 3vr4_A          222 VIDTFFPVT-KGGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMER  295 (600)
T ss_dssp             HHHHHSCCB-TTCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGG
T ss_pred             hhhccCCcc-CCCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHHHhhcccccccccccc
Confidence            445554322 45678999999999999999997754     346788888887633 3344444321    011000   


Q ss_pred             ----CCCCCCCHHHH------HHHHHHHhC--CCcEEEEEeCCCC
Q 043249          239 ----DSWQGKSFEER------ASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       239 ----~~~~~~~~~~l------~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                          ....+......      .-.+.++++  ++..||++|++..
T Consensus       296 tvvV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR  340 (600)
T 3vr4_A          296 TVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTSR  340 (600)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHH
T ss_pred             eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHH
Confidence                00112222211      122445553  7899999999863

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.28  E-value=0.029  Score=46.10  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-++|.|++|+||||+|+.+....
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHHHh
Confidence            34568999999999999999998765

>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=94.26  E-value=0.027  Score=44.33  Aligned_cols=25  Identities=20%  Similarity=0.359  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|..|+|||||...+.+..
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            4567899999999999999987653

>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=94.26  E-value=0.027  Score=45.13  Aligned_cols=25  Identities=28%  Similarity=0.254  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4456789999999999999999875

>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=94.26  E-value=0.025  Score=48.39  Aligned_cols=25  Identities=32%  Similarity=0.563  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3468999999999999999999865

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.25  E-value=0.027  Score=44.22  Aligned_cols=25  Identities=16%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|..|+|||||...+.+.
T Consensus         6 ~~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            6 SSYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999999875

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.24  E-value=0.023  Score=51.77  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+.+-
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            4578999999999999999998764

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.24  E-value=0.15  Score=46.63  Aligned_cols=91  Identities=11%  Similarity=0.142  Sum_probs=52.9

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEER-  249 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~l-  249 (287)
                      +-.-++|+|..|+|||+|+ ..+.|..    .+--.++++-+++..+ ..++.+++.+.-....    ....+...... 
T Consensus       161 rGQR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~  236 (513)
T 3oaa_A          161 RGQRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQY  236 (513)
T ss_dssp             TTCBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHH
T ss_pred             cCCEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHH
Confidence            3456789999999999996 5666632    2222467888988754 4456666544311110    00111222111 


Q ss_pred             -----HHHHHHHh--CCCcEEEEEeCCCC
Q 043249          250 -----ASDITNTL--KHKKFVLLSDDIWE  271 (287)
Q Consensus       250 -----~~~l~~~l--~~kr~LlVLDDvw~  271 (287)
                           .-.+.+++  +++..||++||+..
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLli~Dsltr  265 (513)
T 3oaa_A          237 LAPYAGCAMGEYFRDRGEDALIIYDDLSK  265 (513)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEecChHH
Confidence                 12234444  48999999999965

>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=94.23  E-value=0.044  Score=46.91  Aligned_cols=33  Identities=24%  Similarity=0.557  Sum_probs=25.2

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ++++...+.     -.+++|+|+.|+|||||.+.+...
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhccc
Confidence            444544442     358899999999999999999764

>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=94.21  E-value=0.028  Score=44.91  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988764

>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=94.21  E-value=0.028  Score=44.22  Aligned_cols=25  Identities=28%  Similarity=0.589  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcC
Confidence            3456789999999999999998764

>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=94.18  E-value=0.029  Score=43.98  Aligned_cols=25  Identities=24%  Similarity=0.266  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||...+.+..
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            3467899999999999999998643

>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=94.17  E-value=0.032  Score=49.71  Aligned_cols=24  Identities=38%  Similarity=0.613  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|.|+.|+||||||..+....
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            588999999999999999998765

>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=94.17  E-value=0.029  Score=44.12  Aligned_cols=26  Identities=31%  Similarity=0.303  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--|.|+|.+|+|||||...+.+..
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC
Confidence            34567899999999999999988753

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.16  E-value=0.029  Score=43.98  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--|.|+|..|+|||||...+.+..
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999998754

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.15  E-value=0.16  Score=46.41  Aligned_cols=98  Identities=10%  Similarity=0.148  Sum_probs=56.8

Q ss_pred             CceEEEEEccCCCcHHHHH-HHHHHHhccccCCCC-EEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLL-KQVNNKFCSEEHDFD-VVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEER  249 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa-~~v~~~~~~v~~~F~-~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~l  249 (287)
                      +-.-++|+|..|+|||+|| ..+.+..     .-+ .++++-+++... +.++.+++...-....    ....+......
T Consensus       174 rGQR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r  248 (515)
T 2r9v_A          174 RGQRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQ  248 (515)
T ss_dssp             TTCBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHH
T ss_pred             cCCEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHH
Confidence            4456789999999999995 5676643     345 467888888654 3455666654211100    00112221111


Q ss_pred             ------HHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          250 ------ASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       250 ------~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                            .-.+.++++  ++..||++||+..-...+..+
T Consensus       249 ~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A~A~REi  286 (515)
T 2r9v_A          249 YIAPYAGCAMGEYFAYSGRDALVVYDDLSKHAVAYRQL  286 (515)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEeccHHHHHHHHHHH
Confidence                  123445554  799999999996523344444

>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=94.14  E-value=0.029  Score=44.87  Aligned_cols=25  Identities=20%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456789999999999999998764

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=94.13  E-value=0.18  Score=46.09  Aligned_cols=111  Identities=9%  Similarity=0.152  Sum_probs=61.1

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHH-HHHHHHHhccc----cCCCC-EEEEEEecCCCC-HHHHHHHHHHHhCCCC-
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTL-LKQVNNKFCSE----EHDFD-VVIWSVVSREPN-LMQIQEDIGKRIGFST-  238 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtL-a~~v~~~~~~v----~~~F~-~~~wv~vs~~~~-~~~i~~~i~~~~~~~~-  238 (287)
                      .++.|..=. +-.-++|+|..|+|||+| +..+.+.. ..    .++-+ .++++-+++... ..++.+++...-.... 
T Consensus       152 aID~l~Pig-rGQR~~I~g~~g~GKT~Lal~~I~~q~-~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~t  229 (510)
T 2ck3_A          152 AVDSLVPIG-RGQRELIIGDRQTGKTSIAIDTIINQK-RFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT  229 (510)
T ss_dssp             HHHHHSCCB-TTCBCEEEESTTSSHHHHHHHHHHHTH-HHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGE
T ss_pred             eeccccccc-cCCEEEEecCCCCCchHHHHHHHHHHH-hhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccc
Confidence            344444321 345678999999999999 45676654 21    12344 577888888654 4455666654211100 


Q ss_pred             ---CCCCCCCHHHH------HHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          239 ---DSWQGKSFEER------ASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       239 ---~~~~~~~~~~l------~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         ....+......      .-.+.++++  ++..||++||+..-...+..+
T Consensus       230 vvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REi  281 (510)
T 2ck3_A          230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQM  281 (510)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHH
T ss_pred             eEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHHHHHHHH
Confidence               00111221111      123445554  799999999996522344444

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.10  E-value=0.031  Score=43.90  Aligned_cols=24  Identities=33%  Similarity=0.337  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|..|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.09  E-value=0.017  Score=48.23  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|.|..|+||||+++.+....
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            56789999999999999999987654

>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=94.08  E-value=0.027  Score=44.59  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||...+.+..
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            3467899999999999999987643

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=94.07  E-value=0.032  Score=43.71  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|..|+|||||...+.+..
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            4567899999999999999987653

>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=94.05  E-value=0.033  Score=46.77  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|+++|.+|+|||||...+....
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            4578999999999999999987653

>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=94.03  E-value=0.032  Score=44.16  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            4567889999999999999998754

>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=94.03  E-value=0.033  Score=43.64  Aligned_cols=25  Identities=24%  Similarity=0.123  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcC
Confidence            4456889999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.01  E-value=0.039  Score=43.57  Aligned_cols=24  Identities=25%  Similarity=0.134  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.|+|..|+||||++..+....
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            578899999999999985554443

>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=94.00  E-value=0.033  Score=43.58  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      --|.|+|.+|+|||||...+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            467899999999999999997653

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.98  E-value=0.041  Score=50.92  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|++|.||||+|+.+....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999997654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.96  E-value=0.028  Score=44.49  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999988754

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.95  E-value=0.029  Score=46.02  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...-|+|+|..|+|||||...+....
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            45678999999999999999998754

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.94  E-value=0.021  Score=49.68  Aligned_cols=25  Identities=28%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -.+++|+|..|.|||||++.+..-.
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            3589999999999999999997754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.94  E-value=0.034  Score=44.19  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .--|.|+|.+|+|||||...+.+..
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            4567899999999999999987643

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=93.93  E-value=0.073  Score=48.06  Aligned_cols=45  Identities=20%  Similarity=0.403  Sum_probs=34.3

Q ss_pred             cchHHHHHHHHHHHhccC---------CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQK---------KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.++-++.+.+.+...+         ....-++|+|.+|+|||||.+.+....
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            577777888877775321         234578999999999999999997753

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.92  E-value=0.028  Score=44.62  Aligned_cols=25  Identities=28%  Similarity=0.230  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999998654

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.89  E-value=0.035  Score=44.29  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999998764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.89  E-value=0.034  Score=50.27  Aligned_cols=26  Identities=27%  Similarity=0.477  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-..++|+|..|+|||||++.+.+-.
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            56789999999999999999998865

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.87  E-value=0.025  Score=50.89  Aligned_cols=25  Identities=32%  Similarity=0.380  Sum_probs=21.0

Q ss_pred             CceE--EEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGI--IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~v--i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+  ++|+|..|+|||||.+.+...
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            3356  999999999999999999763

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.85  E-value=0.1  Score=42.51  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|-|+.|+||||+++.+....
T Consensus        13 ~~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           13 KNLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            35799999999999999999998765

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=93.83  E-value=0.033  Score=43.96  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +.--|.|+|.+|+|||||...+.+
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHh
Confidence            445689999999999999999854

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.81  E-value=0.038  Score=43.42  Aligned_cols=24  Identities=33%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|..|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999865

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=93.79  E-value=0.031  Score=43.51  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.--|.|+|..|+|||||...+.+.
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999999764

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.78  E-value=0.031  Score=44.97  Aligned_cols=25  Identities=36%  Similarity=0.454  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
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            3456789999999999999998753

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=93.76  E-value=0.039  Score=45.17  Aligned_cols=24  Identities=25%  Similarity=0.140  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -.|.+.|.||+||||+|-.+....
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH
Confidence            346788999999999988887765

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=93.76  E-value=0.036  Score=48.65  Aligned_cols=24  Identities=29%  Similarity=0.392  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|+|..|+|||||.+.+....
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            588999999999999999998654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=93.74  E-value=0.039  Score=43.87  Aligned_cols=25  Identities=20%  Similarity=0.206  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhC
Confidence            4456889999999999999998764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=93.74  E-value=0.039  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..-|.|+|.+|+|||||...+.+..
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            3467899999999999999987643

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.74  E-value=0.039  Score=43.95  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+...
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998764

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.74  E-value=0.035  Score=43.22  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998754

>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=93.73  E-value=0.047  Score=44.31  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ....|.|+|.+|+|||||...+.+..
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            55678999999999999999987653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.72  E-value=0.035  Score=51.58  Aligned_cols=26  Identities=38%  Similarity=0.617  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.72  E-value=0.041  Score=43.24  Aligned_cols=25  Identities=28%  Similarity=0.428  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...-|.|+|..|+|||||...+.+.
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            5677899999999999999998654

>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=93.70  E-value=0.042  Score=50.23  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|+|..|+|||||.+.+..-.
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            899999999999999999998654

>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=93.70  E-value=0.038  Score=44.69  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=20.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ...-|.|+|.+|+|||||...+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345688999999999999998863

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.69  E-value=0.04  Score=43.99  Aligned_cols=24  Identities=25%  Similarity=0.176  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>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=93.65  E-value=0.041  Score=44.27  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            345789999999999999998765

>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=93.63  E-value=0.048  Score=49.71  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.++|++|+||||+++.+....
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45688999999999999999998765

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=93.61  E-value=0.022  Score=44.19  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=10.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
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            456889999999999999987654

>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=93.60  E-value=0.062  Score=43.12  Aligned_cols=26  Identities=12%  Similarity=0.195  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|+|+||.|+||+|.|..+-+..
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            45799999999999999999986643

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=93.60  E-value=0.038  Score=47.47  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|+|+|.+|+|||||...+...
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            5689999999999999999998765

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.59  E-value=0.038  Score=43.48  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|..|+|||||...+.+.
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.57  E-value=0.039  Score=51.30  Aligned_cols=25  Identities=28%  Similarity=0.561  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4578999999999999999999763

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=93.56  E-value=0.079  Score=48.93  Aligned_cols=40  Identities=20%  Similarity=0.222  Sum_probs=32.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREP  221 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~  221 (287)
                      +-.-++|+|..|+|||+|+..+.+..     +-+.++++-+++..
T Consensus       220 rGqr~~Ifg~~g~GKT~l~~~ia~~~-----~~~v~V~~~iGER~  259 (578)
T 3gqb_A          220 MGGTAAIPGPFGSGKSVTQQSLAKWS-----NADVVVYVGSGERG  259 (578)
T ss_dssp             TTCEEEECCCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECH
T ss_pred             CCCEEeeeCCCCccHHHHHHHHHhcc-----CCCEEEEEEecccH
Confidence            45678999999999999999997754     34678888888763

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=93.53  E-value=0.058  Score=48.94  Aligned_cols=102  Identities=12%  Similarity=0.114  Sum_probs=59.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC--CCCEEEEEEecCCCC-HHHHHHHHHHHhCCCC----CCCCCCCHHH-
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH--DFDVVIWSVVSREPN-LMQIQEDIGKRIGFST----DSWQGKSFEE-  248 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~--~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~~----~~~~~~~~~~-  248 (287)
                      +-.-++|+|..|+|||+|+..+.+.. ....  .=+.++++-+.+... ..++.+++...-....    ....+..... 
T Consensus       151 rGQr~~Ifgg~G~GKt~Ll~~Ia~~~-~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r  229 (469)
T 2c61_A          151 RGQKLPIFSASGLPHNEIALQIARQA-SVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVER  229 (469)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHC-BCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHH-hhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHH
Confidence            34556789999999999999998876 3211  114677888887654 4456666655311100    0001222211 


Q ss_pred             -----HHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          249 -----RASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       249 -----l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                           ..-.+.++++   ++..||++||+..-...+..+
T Consensus       230 ~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~A~A~rEi  268 (469)
T 2c61_A          230 IVTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQM  268 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCEEEEEEECHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEeCHHHHHHHHHHH
Confidence                 1223555554   699999999986523344444

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=93.51  E-value=0.039  Score=43.83  Aligned_cols=24  Identities=29%  Similarity=0.497  Sum_probs=19.9

Q ss_pred             eEEEEE-ccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLY-GMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~-G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|+|+ +-||+||||+|..+....
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            578888 669999999999886654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.49  E-value=0.046  Score=50.79  Aligned_cols=25  Identities=48%  Similarity=0.826  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            5579999999999999999998763

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.49  E-value=0.034  Score=51.64  Aligned_cols=26  Identities=38%  Similarity=0.663  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       293 ~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          293 EGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998743

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=93.46  E-value=0.05  Score=44.51  Aligned_cols=26  Identities=15%  Similarity=0.346  Sum_probs=22.0

Q ss_pred             CceEEEEEcc-CCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGM-GGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~-gGvGKTtLa~~v~~~~  202 (287)
                      ..++|+|+|. ||+||||+|..+....
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~l   29 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFAL   29 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHH
Confidence            5678999954 9999999999988766

>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=93.44  E-value=0.061  Score=40.87  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..+..|+|..|.||||+..+++-
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            46889999999999999999864

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=93.37  E-value=0.069  Score=41.64  Aligned_cols=24  Identities=21%  Similarity=0.346  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +.--|.|+|.+|+|||||...+.+
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            456689999999999999999854

>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=93.36  E-value=0.045  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=18.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4679999999999999987653

>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=93.32  E-value=0.045  Score=51.63  Aligned_cols=93  Identities=24%  Similarity=0.306  Sum_probs=52.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCC--CC-EEEEEEecCCC------CHHHH--------------HHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHD--FD-VVIWSVVSREP------NLMQI--------------QEDIGKR  233 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~--F~-~~~wv~vs~~~------~~~~i--------------~~~i~~~  233 (287)
                      .-.+++|+|..|+|||||++.+..-..-....  +. .+.++  .|+.      ++...              ..++++.
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v--~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~  458 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYK--PQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKP  458 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEE--CSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEE--ecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHH
Confidence            34689999999999999999998753111111  22 23333  3321      22222              2334555


Q ss_pred             hCCCC---CCCCCCCHHHHH-HHHHHHhCCCcEEEEEeCCCC
Q 043249          234 IGFST---DSWQGKSFEERA-SDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       234 ~~~~~---~~~~~~~~~~l~-~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ++...   ......+-.+.+ -.|...|..+.=+|+||+-.+
T Consensus       459 ~~l~~~~~~~~~~LSGGe~QRv~iAraL~~~p~lLlLDEPt~  500 (607)
T 3bk7_A          459 LGIIDLYDRNVEDLSGGELQRVAIAATLLRDADIYLLDEPSA  500 (607)
T ss_dssp             HTCTTTTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTT
T ss_pred             cCCchHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCcc
Confidence            55431   112233433332 346677777888899998766

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=93.32  E-value=0.045  Score=45.63  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             CceEEEEE-ccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLY-GMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~-G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|+|+ |-||+||||+|..+....
T Consensus        26 ~~~vI~v~s~kGGvGKTT~a~~LA~~l   52 (267)
T 3k9g_A           26 KPKIITIASIKGGVGKSTSAIILATLL   52 (267)
T ss_dssp             CCEEEEECCSSSSSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCchHHHHHHHHHHHH
Confidence            67899997 569999999999998776

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=93.31  E-value=0.037  Score=43.36  Aligned_cols=26  Identities=19%  Similarity=0.295  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.--|.|+|..|+|||||...+.+..
T Consensus        20 ~~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           20 KEVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             -CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567899999999999999987653

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=93.31  E-value=0.049  Score=46.56  Aligned_cols=26  Identities=19%  Similarity=0.288  Sum_probs=22.8

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .....|+|+|..|+|||||...+...
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            35678999999999999999999764

>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=93.29  E-value=0.035  Score=49.90  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+|+|..|+|||||.+.+....
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            4999999999999999997643

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=93.26  E-value=0.042  Score=44.02  Aligned_cols=25  Identities=28%  Similarity=0.301  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..--|.|+|..|+|||||...+.+.
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>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=93.25  E-value=0.045  Score=43.88  Aligned_cols=26  Identities=15%  Similarity=0.124  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+.|.|.|..|+||||||..+....
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            34678899999999999999987643

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=93.23  E-value=0.22  Score=52.16  Aligned_cols=87  Identities=18%  Similarity=0.193  Sum_probs=59.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCC---CCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSW---QGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~---~~~~~~~l~~~l  253 (287)
                      .-++|-|+|+.|+||||||-++....   +..=..++|+...+.+++.-     +++++...+.+   ...+-++-...+
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            55899999999999999999998754   33445788999888877765     77777643221   112223333445


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ +.-=+||+|-|-.
T Consensus      1502 ~~~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHcCCCCEEEEccHHh
Confidence            55555 5667899998843

>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=93.21  E-value=0.057  Score=44.79  Aligned_cols=25  Identities=28%  Similarity=0.247  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|+|+|.+|+|||||...+...
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            4567899999999999999998754

>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=93.16  E-value=0.052  Score=50.94  Aligned_cols=25  Identities=24%  Similarity=0.395  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.+..-
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhc
Confidence            5578999999999999999998653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.16  E-value=0.049  Score=51.35  Aligned_cols=91  Identities=24%  Similarity=0.189  Sum_probs=50.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCC-C-C-EEEEEEecCC--------------------CCHHHHHHHHHHHhC
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHD-F-D-VVIWSVVSRE--------------------PNLMQIQEDIGKRIG  235 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~-F-~-~~~wv~vs~~--------------------~~~~~i~~~i~~~~~  235 (287)
                      .+++|+|..|+|||||++.+..-..-.... . . ...++  .+.                    +.......++++.++
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~--~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~  456 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMK--PQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLR  456 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEE--CSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHT
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEe--cccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcC
Confidence            579999999999999999998743111111 0 0 11222  111                    111223344555555


Q ss_pred             CCC---CCCCCCCHHHHH-HHHHHHhCCCcEEEEEeCCCC
Q 043249          236 FST---DSWQGKSFEERA-SDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       236 ~~~---~~~~~~~~~~l~-~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ...   ......+-.+.+ -.|.+.|..+.=+|+||+-.+
T Consensus       457 l~~~~~~~~~~LSGGqkQRv~iAraL~~~p~lLlLDEPT~  496 (608)
T 3j16_B          457 IDDIIDQEVQHLSGGELQRVAIVLALGIPADIYLIDEPSA  496 (608)
T ss_dssp             STTTSSSBSSSCCHHHHHHHHHHHHTTSCCSEEEECCTTT
T ss_pred             ChhhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCC
Confidence            421   112334443333 346777888888888998765

>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=93.15  E-value=0.054  Score=46.38  Aligned_cols=25  Identities=28%  Similarity=0.538  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...|+|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999998865

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.07  E-value=0.051  Score=51.21  Aligned_cols=25  Identities=44%  Similarity=0.719  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4579999999999999999998753

>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=93.07  E-value=0.05  Score=47.92  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|+|+|.+|+|||||.+.+.+..
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            56779999999999999999987643

>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=93.06  E-value=0.053  Score=45.23  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.|+++|.+|+|||||...+...
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            46899999999999999998765

>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=93.04  E-value=0.056  Score=50.73  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|.|||||++.+..-
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5578999999999999999998753

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.04  E-value=0.11  Score=41.66  Aligned_cols=24  Identities=33%  Similarity=0.580  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-|+|=|.-|+||||+++.+.+..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            457888999999999999999987

>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=93.03  E-value=0.06  Score=45.37  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...|+++|.+|+|||||...+...
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            456899999999999999999764

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.02  E-value=0.11  Score=48.37  Aligned_cols=26  Identities=19%  Similarity=0.236  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.+.|+.|+||||+|+.+....
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999998765

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=93.02  E-value=0.22  Score=40.54  Aligned_cols=103  Identities=15%  Similarity=0.147  Sum_probs=51.8

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCC-CEEEEEEecCCCCHHHHHHHHHHHhCCCCCC--
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDF-DVVIWSVVSREPNLMQIQEDIGKRIGFSTDS--  240 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F-~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~--  240 (287)
                      .++++..+..+    ..+.|+|..|+||||+.....-+.......+ .+.+.+..........+.+.+...++.....  
T Consensus        66 q~~~i~~i~~g----~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~  141 (235)
T 3llm_A           66 ESEILEAISQN----SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSC  141 (235)
T ss_dssp             HHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSE
T ss_pred             HHHHHHHHhcC----CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceE
Confidence            34444455444    5789999999999987665533220222222 2333333332222334444444433321000  


Q ss_pred             ----------------CCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          241 ----------------WQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       241 ----------------~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                                      .--.+...+...+...+.+=+ +||+|++..
T Consensus       142 g~~~~~~~~~~~~~~~Ivv~Tpg~l~~~l~~~l~~~~-~lVlDEah~  187 (235)
T 3llm_A          142 GYSVRFESILPRPHASIMFCTVGVLLRKLEAGIRGIS-HVIVDEIHE  187 (235)
T ss_dssp             EEEETTEEECCCSSSEEEEEEHHHHHHHHHHCCTTCC-EEEECCTTS
T ss_pred             EEeechhhccCCCCCeEEEECHHHHHHHHHhhhcCCc-EEEEECCcc
Confidence                            001244555566655444444 689999976

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=93.01  E-value=0.059  Score=43.53  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999998764

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=92.98  E-value=0.073  Score=49.80  Aligned_cols=26  Identities=19%  Similarity=0.189  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

---

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	287
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-15
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	9e-04

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 71.0 bits (173), Expect = 6e-15
 Identities = 18/128 (14%), Positives = 42/128 (32%), Gaps = 10/128 (7%)

Query: 156 TIVGQESILDQVWRCITEQKKNNG-IIGLYGMGGIGKTTLLKQV-NNKFCSEEHDFDVVI 213
           T   +E  +D+V + + E    +   + L+G  G GK+ +  Q  +        ++D ++
Sbjct: 21  TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV 80

Query: 214 WSVVSREPNLMQIQEDIGKRIGFSTDSWQGK--------SFEERASDITNTLKHKKFVLL 265
           W   S               +   ++             S   +       +     + +
Sbjct: 81  WLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV 140

Query: 266 SDDIWESE 273
            DD+ + E
Sbjct: 141 FDDVVQEE 148

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score = 37.8 bits (86), Expect = 9e-04
 Identities = 13/114 (11%), Positives = 40/114 (35%), Gaps = 9/114 (7%)

Query: 157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV 216
           +  Q+  +  + + +      + +   YG  G GKT+ +  +  +    +     ++   
Sbjct: 14  VTAQDHAVTVLKKTLKSANLPHML--FYGPPGTGKTSTILALTKELYGPDLMKSRILELN 71

Query: 217 VSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIW 270
            S E  +  ++E +        +  +    +    D+ N       +++ D+  
Sbjct: 72  ASDERGISIVREKVK-------NFARLTVSKPSKHDLENYPCPPYKIIILDEAD 118

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	287
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.9
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.92
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.66
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.4
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.27
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.26
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.1
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.1
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.08
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.05
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.05
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.02
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.89
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.88
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.88
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.83
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.72
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.72
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.68
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.65
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.62
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.55
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.44
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.41
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.4
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.38
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.38
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.37
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.3
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.3
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.29
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.29
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.27
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.24
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.22
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.22
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.2
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.15
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.14
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.14
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.13
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.13
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.13
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.07
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.07
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.06
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.06
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.02
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.99
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.94
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.92
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.87
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.86
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.86
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.83
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.8
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.8
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.78
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.76
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.75
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.73
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.7
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.68
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.67
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.65
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.64
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.63
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.52
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.47
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.45
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.44
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.41
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.39
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.38
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.38
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.38
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.28
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.24
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.24
d1okkd2	207	GTPase domain of the signal recognition particle r	96.24
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.22
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.2
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.16
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.14
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.14
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.12
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.11
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.03
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.99
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.99
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.98
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.96
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.96
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.95
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.94
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.93
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.9
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.9
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.87
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.87
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.86
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.83
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.83
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.81
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.81
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.77
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.77
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.75
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.73
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.72
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.68
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.68
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.64
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.64
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.57
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.51
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.49
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.48
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.47
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.43
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.41
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.41
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.37
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.36
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.32
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.3
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.29
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.29
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.28
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.28
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.26
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.25
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.24
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.2
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.18
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.16
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.15
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.14
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.14
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.14
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.13
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.07
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.07
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.06
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.04
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.02
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.02
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.98
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.95
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.92
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.92
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.92
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.92
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.91
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.9
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.88
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.87
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.87
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.84
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.82
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.82
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.81
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.8
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.8
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.78
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.78
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.73
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.72
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.69
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.67
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.62
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.62
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.61
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.51
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.46
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.46
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.45
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.4
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.35
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.35
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.34
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.33
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.29
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.25
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.25
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.22
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.22
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.22
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.2
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.14
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.14
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.13
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.06
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.92
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.84
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.81
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.77
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.74
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.63
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.34
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.23
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.18
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	92.91
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.9
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.83
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.8
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.79
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.61
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.59
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	92.24
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	91.74
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.72
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.55
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.94
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.81
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.74
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.73
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.66
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.06
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.95
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.92
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	89.82
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.76
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.7
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.41
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.89
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	88.84
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	88.44
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	88.13
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	88.0
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	87.37
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.24
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.86
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	86.21
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	86.2
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	83.24
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.04
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	81.27
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	81.05
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.98
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	80.96

>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=99.90  E-value=1.2e-23  Score=179.35  Aligned_cols=125  Identities=15%  Similarity=0.061  Sum_probs=96.9

Q ss_pred             CCcccchHHHHHHHHHHHhc-cCCCceEEEEEccCCCcHHHHHHHHHHHhc-cccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITE-QKKNNGIIGLYGMGGIGKTTLLKQVNNKFC-SEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~-~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      ++.++||+.++++|+++|.. .+....+|+|+||||+||||||+.+|++.. ..+.+|++++||++++.++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            56789999999999999975 344688999999999999999999999751 2577899999999999999887776664


Q ss_pred             HH---hCCCCC-----CCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCcccccccc
Q 043249          232 KR---IGFSTD-----SWQGKSFEERASDITNTLKHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       232 ~~---~~~~~~-----~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ..   ++....     .............+.+.|.++||||||||||+ ..+|+.+
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~-~~~~~~~  153 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQ-EETIRWA  153 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECC-HHHHHHH
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhH-Hhhhhhh
Confidence            43   322110     11122334455668889999999999999999 8777654

>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=98.92  E-value=2.2e-08  Score=82.63  Aligned_cols=115  Identities=17%  Similarity=0.211  Sum_probs=83.7

Q ss_pred             CCcccchHHHHHHHHHHHhc----cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHH
Q 043249          154 DRTIVGQESILDQVWRCITE----QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQED  229 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~  229 (287)
                      +..++||+.+++.|.++|..    .....+.+.|+|++|+||||+|+.+.+.. .....| ..+|+..........+...
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~~~-~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTTA-RFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCCC-EEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hcccCC-cEEEecchhhhhhhhhhhh
Confidence            45689999999999998864    23456788999999999999999999987 322233 3456777777788888888


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          230 IGKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       230 i~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      +....+... .........+...+.+.+.  ....++++|++.+
T Consensus        93 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~  135 (276)
T d1fnna2          93 IARSLNIPF-PRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFN  135 (276)
T ss_dssp             HHHHTTCCC-CSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGG
T ss_pred             hHHhhhhhh-hhhccchhHHHHHHHHHHhhcccccccchhHHHH
Confidence            888876632 2234456666666666554  4577788888766

>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=98.66  E-value=1.6e-07  Score=77.66  Aligned_cols=117  Identities=20%  Similarity=0.216  Sum_probs=80.1

Q ss_pred             CCcccchHHHHHHHHHHHhc----cC--CC-ceEEEEEccCCCcHHHHHHHHHHHhcc---ccCCCCEEEEEEecCCCCH
Q 043249          154 DRTIVGQESILDQVWRCITE----QK--KN-NGIIGLYGMGGIGKTTLLKQVNNKFCS---EEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~----~~--~~-~~vi~I~G~gGvGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~  223 (287)
                      ++.++||+.+++.|.+++..    +.  .+ ..++.++|++|+||||+++.+.+...+   .........++......+.
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            56789999999999887742    11  12 234567899999999999999886511   1112234667777777788


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      ......+...++... .............+.+...  +..+++++|.+..
T Consensus        95 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~  143 (287)
T d1w5sa2          95 YTILSLIVRQTGYPI-QVRGAPALDILKALVDNLYVENHYLLVILDEFQS  143 (287)
T ss_dssp             HHHHHHHHHHHTCCC-CCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHH
T ss_pred             hhHHHHHhhhccccc-ccccchHHHHHHHHHHHHHhccCccccceeEEEE
Confidence            888888888877633 2234556666666666554  5677888887754

>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=98.40  E-value=5.4e-07  Score=74.03  Aligned_cols=43  Identities=16%  Similarity=0.277  Sum_probs=36.0

Q ss_pred             CCcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|+||++++++|.+.      ..+++.|+|++|+|||||++.+.+..
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            35789999999988652      34678899999999999999998765

>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=98.27  E-value=2.4e-06  Score=70.27  Aligned_cols=98  Identities=19%  Similarity=0.311  Sum_probs=61.4

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhcc--ccCC-CCEEEEE-EecCCCCHHHHHHHHH
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCS--EEHD-FDVVIWS-VVSREPNLMQIQEDIG  231 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~--v~~~-F~~~~wv-~vs~~~~~~~i~~~i~  231 (287)
                      .++||+++++++++.|...  .-.-+.+||.+|+|||+++..+......  +... ....+|. .++.          ++
T Consensus        19 ~~igRd~Ei~~l~~iL~r~--~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~----------li   86 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS----------LL   86 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             cccChHHHHHHHHHHHhcC--ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech----------Hh
Confidence            4799999999999999866  3345569999999999999888765411  1122 2345553 2221          01


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHhC-CCcEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVLDDvw~  271 (287)
                          . ... .....++....+...+. .++.+|++||+..
T Consensus        87 ----a-g~~-~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~  121 (268)
T d1r6bx2          87 ----A-GTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHT  121 (268)
T ss_dssp             ----C-CCC-CSSCHHHHHHHHHHHHSSSSCEEEEETTTTT
T ss_pred             ----c-cCc-cchhHHHHHHHHHHHhhccCCceEEecchHH
Confidence                0 011 12344555555555554 5678999999765

>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=98.26  E-value=2.4e-06  Score=66.73  Aligned_cols=45  Identities=16%  Similarity=0.413  Sum_probs=37.7

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++||+++++++++.|...  .-.-+.+||.+|+|||+++..+....
T Consensus        23 ~~igRd~Ei~~l~~iL~r~--~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhcc--CCCCeEEEecCCcccHHHHHHHHHHH
Confidence            4699999999999999876  33456799999999999998877654

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.10  E-value=1.2e-06  Score=70.35  Aligned_cols=46  Identities=22%  Similarity=0.403  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.|.+|+..+  ....+-++|++|+||||+|+.+.+..
T Consensus        14 ~divg~~~~~~~L~~~i~~~--~~~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChhHHHHHHHHHh
Confidence            46899999999999999876  45556799999999999999998865

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.10  E-value=3e-06  Score=67.82  Aligned_cols=46  Identities=28%  Similarity=0.436  Sum_probs=39.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.|.+++...  ....+-++|++|+||||+|+.+.+..
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHH
Confidence            46899999999999999876  55557799999999999999987765

>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=98.08  E-value=2e-06  Score=69.32  Aligned_cols=46  Identities=17%  Similarity=0.321  Sum_probs=39.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++++|.++.++.+..++...  ..+.+-++|++|+||||+++.+.+..
T Consensus        12 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHH
Confidence            45899999999999998766  55557899999999999999998764

>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=98.05  E-value=8.5e-06  Score=70.59  Aligned_cols=98  Identities=16%  Similarity=0.305  Sum_probs=55.1

Q ss_pred             cccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhc--cccC-CCCEEEEE-EecCCCCHHHHHHHHH
Q 043249          156 TIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFC--SEEH-DFDVVIWS-VVSREPNLMQIQEDIG  231 (287)
Q Consensus       156 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~--~v~~-~F~~~~wv-~vs~~~~~~~i~~~i~  231 (287)
                      .++||+.+++++++.|....  -.-+.+||.+|||||+++..+.....  .+.. -.+.++|. .++.      +    +
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~--k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------l----~   90 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------L----L   90 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCcCcHHHHHHHHHHHhcCC--CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------h----h
Confidence            46999999999999998663  33335789999999998755443221  2222 34556654 3321      1    1


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHHh-CC-CcEEEEEeCCCC
Q 043249          232 KRIGFSTDSWQGKSFEERASDITNTL-KH-KKFVLLSDDIWE  271 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~~l-~~-kr~LlVLDDvw~  271 (287)
                      ...     .+. ...++....+...+ .. ..++|++|++..
T Consensus        91 ag~-----~~~-g~~e~r~~~i~~~~~~~~~~~ilfide~h~  126 (387)
T d1qvra2          91 AGA-----KYR-GEFEERLKAVIQEVVQSQGEVILFIDELHT  126 (387)
T ss_dssp             -------------CHHHHHHHHHHHHHTTCSSEEEEECCC--
T ss_pred             ccc-----Ccc-hhHHHHHHHHHHHhccCCCceEEEeccHHH
Confidence            111     111 23344444443333 43 479999999976

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.05  E-value=3.2e-06  Score=68.73  Aligned_cols=65  Identities=18%  Similarity=0.215  Sum_probs=47.4

Q ss_pred             CcccchHHHHHHHHHHHhc---------------cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecC
Q 043249          155 RTIVGQESILDQVWRCITE---------------QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSR  219 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~---------------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~  219 (287)
                      .+++|.+..+++|.++|..               +....+.+-++|++|+||||+|+.+.+..     .+ ...++..+.
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            4689999999999998853               12245678899999999999999999865     22 244566655


Q ss_pred             CCCHHH
Q 043249          220 EPNLMQ  225 (287)
Q Consensus       220 ~~~~~~  225 (287)
                      ..+...
T Consensus        88 ~~~~~~   93 (253)
T d1sxja2          88 VRSKTL   93 (253)
T ss_dssp             CCCHHH
T ss_pred             chhhHH
Confidence            544433

>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=98.02  E-value=1.3e-05  Score=65.57  Aligned_cols=93  Identities=17%  Similarity=0.200  Sum_probs=58.1

Q ss_pred             CcccchHHHHHHHHHH---Hhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH
Q 043249          155 RTIVGQESILDQVWRC---ITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM  224 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~---L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~  224 (287)
                      .+++|.++.+++|.+.   +...       ....+-+-++|++|+|||+||+.+.+..   ..+     ++.++.. +  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~-----~~~i~~~-~--   80 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP-----FFTISGS-D--   80 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC-----EEEECSC-S--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC-----EEEEEhH-H--
Confidence            5689998877777553   3322       1235667899999999999999999866   222     2333221 0  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCC
Q 043249          225 QIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIW  270 (287)
Q Consensus       225 ~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw  270 (287)
                               +.   ..+...+...+...+...-+..+++|++||+.
T Consensus        81 ---------l~---~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD  114 (256)
T d1lv7a_          81 ---------FV---EMFVGVGASRVRDMFEQAKKAAPCIIFIDEID  114 (256)
T ss_dssp             ---------ST---TSCCCCCHHHHHHHHHHHHTTCSEEEEETTHH
T ss_pred             ---------hh---hcchhHHHHHHHHHHHHHHHcCCEEEEEEChh
Confidence                     00   01223344455555555556788999999984

>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=97.89  E-value=2.4e-05  Score=63.98  Aligned_cols=94  Identities=21%  Similarity=0.192  Sum_probs=57.7

Q ss_pred             CcccchHHHHHHHHHHH----hcc-------CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH
Q 043249          155 RTIVGQESILDQVWRCI----TEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L----~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  223 (287)
                      .++.|.++.+++|.+.+    ...       -...+-+-++|++|+|||+||+.+.+..   ..+|   ..++.+     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~~---~~i~~~-----   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFF---FLINGP-----   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCEE---EEECHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCeE---EEEEch-----
Confidence            35789998888887764    221       1235567899999999999999998865   2222   222111     


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                               .+..   .+...+...+...+...-..++++|+|||+..
T Consensus        73 ---------~l~~---~~~g~~~~~l~~~f~~A~~~~p~il~iDeid~  108 (258)
T d1e32a2          73 ---------EIMS---KLAGESESNLRKAFEEAEKNAPAIIFIDELDA  108 (258)
T ss_dssp             ---------HHTT---SCTTHHHHHHHHHHHHHHHTCSEEEEESSGGG
T ss_pred             ---------hhcc---cccccHHHHHHHHHHHHHhcCCeEEEehhhhh
Confidence                     1111   11112233333344444557889999999865

>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=97.88  E-value=7.7e-06  Score=65.63  Aligned_cols=46  Identities=26%  Similarity=0.354  Sum_probs=40.5

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+..++.+..++..+  +.+.+-++|++|+||||+|+.+.+..
T Consensus        24 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            56899999999999999877  66678899999999999999998754

>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=97.88  E-value=6.1e-06  Score=66.51  Aligned_cols=48  Identities=23%  Similarity=0.337  Sum_probs=39.1

Q ss_pred             CcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.|..++...   +...+-+-++|++|+||||+|+.+.+..
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            46899999999998888532   3345567799999999999999998866

>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=97.83  E-value=8e-06  Score=65.86  Aligned_cols=48  Identities=25%  Similarity=0.410  Sum_probs=38.7

Q ss_pred             CcccchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++||.++.++++..++...   ....+-+-++|++|+||||+|+.+.+..
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            45899999998888887532   2345667799999999999999999876

>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=97.72  E-value=0.00011  Score=59.08  Aligned_cols=47  Identities=21%  Similarity=0.362  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.+..++..+. -.+.+-++|..|+||||+|+.+.+..
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            468999999999999997662 23457799999999999999987654

>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=97.72  E-value=7.9e-05  Score=60.38  Aligned_cols=48  Identities=21%  Similarity=0.319  Sum_probs=35.1

Q ss_pred             CcccchHHHHHHHHH---HHhcc-------CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWR---CITEQ-------KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~---~L~~~-------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++.++.|.+   .+...       -...+-+-++|++|+|||+||+.+.+..
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            468899877666544   33321       1234568899999999999999999865

>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=97.68  E-value=1.2e-05  Score=65.13  Aligned_cols=47  Identities=17%  Similarity=0.215  Sum_probs=37.0

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.++..+.|.+++.... ...-+-++|++|+||||+|+.+.+..
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            458999988888887776543 33345699999999999999998864

>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=97.65  E-value=3.4e-05  Score=63.34  Aligned_cols=94  Identities=20%  Similarity=0.265  Sum_probs=56.2

Q ss_pred             CcccchHHHHHHHHHHHh----c-------cCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCH
Q 043249          155 RTIVGQESILDQVWRCIT----E-------QKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNL  223 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~----~-------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~  223 (287)
                      .++.|.++.++.|.+.+.    .       +-...+-|-++|++|+|||+||+.+.+..   ..+|     +.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~-----~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANF-----ISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEE-----EEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcE-----EEEE----H
Confidence            457788876666655542    1       11235567899999999999999999876   2222     2332    1


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHhCCCcEEEEEeCCCC
Q 043249          224 MQIQEDIGKRIGFSTDSWQGKSFEERASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       224 ~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                      ..+    .   +.    ........+...+...-...+++|+|||+..
T Consensus        75 ~~l----~---~~----~~~~~~~~l~~~f~~A~~~~p~il~ideid~  111 (265)
T d1r7ra3          75 PEL----L---TM----WFGESEANVREIFDKARQAAPCVLFFDELDS  111 (265)
T ss_dssp             HHH----H---TS----CTTTHHHHHHHHHHHHHHTCSEEEEESSGGG
T ss_pred             HHh----h---hc----cccchHHHHHHHHHHHHhcCCcceeHHhhhh
Confidence            111    1   11    1122333344444444457889999999864

>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=97.62  E-value=0.00011  Score=59.57  Aligned_cols=48  Identities=17%  Similarity=0.077  Sum_probs=34.1

Q ss_pred             CcccchHHHHHHHHHHHh-------cc-CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCIT-------EQ-KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~-------~~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|..+.++.+++-+.       .. ...++-|-++|++|+|||++|+.+.+..
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            446777666665555433       22 2235567899999999999999999875

>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=97.55  E-value=0.00016  Score=57.07  Aligned_cols=49  Identities=29%  Similarity=0.358  Sum_probs=32.8

Q ss_pred             CCcccchHHH--HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESI--LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.++|-.+.  ...+.++..........+-|||..|+|||.|++++.+..
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh
Confidence            4456675432  333344444333334457799999999999999999987

>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=97.44  E-value=3.5e-05  Score=58.74  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -.+.|.|.|+.|+||||||+.+....
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998865

>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=97.41  E-value=4.4e-05  Score=57.48  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|++|+|..|+|||||++.+.+..
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            4799999999999999999998765

>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=97.40  E-value=3.8e-05  Score=57.24  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.+.|++|+||||+|+.+....
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            367788999999999999998865

>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=97.38  E-value=5.2e-05  Score=56.16  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|+|++|+||||||+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999886643

>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=97.38  E-value=6.3e-05  Score=56.97  Aligned_cols=26  Identities=19%  Similarity=0.189  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.|+|++|+||||+|+.+....
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            55789999999999999999998876

>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=97.37  E-value=0.00011  Score=59.69  Aligned_cols=45  Identities=20%  Similarity=0.148  Sum_probs=33.3

Q ss_pred             cchHHHHHHHHHHHhcc---CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQ---KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.++.+.+.++.|..+   .+.++.|-++|++|+||||||+.+.+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_           9 KQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34455556666666443   3466778899999999999999999865

>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=97.30  E-value=7.1e-05  Score=56.30  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|.|++|+||||+|+.+....
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            578999999999999999997754

>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=97.30  E-value=0.00015  Score=57.09  Aligned_cols=42  Identities=21%  Similarity=0.321  Sum_probs=33.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      .+||+|.|++|+||||+|+.+.++.     .|.+.         +...++|+++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~-----gl~~i---------StGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL-----QWHLL---------DSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH-----TCEEE---------EHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh-----CCcEE---------CHHHHHHHHHHH
Confidence            4699999999999999999999987     44332         467888887754

>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=97.29  E-value=8.5e-05  Score=57.54  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=24.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.+|.|+|++|+||||+|+.+....
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            77899999999999999999998876

>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=97.29  E-value=0.00023  Score=54.69  Aligned_cols=27  Identities=30%  Similarity=0.519  Sum_probs=24.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.-+|+|.|..|+||||||+.+....
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            467799999999999999999998876

>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=97.27  E-value=7e-05  Score=56.41  Aligned_cols=24  Identities=46%  Similarity=0.466  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..|.|.|++|+||||+|+.+....
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            457799999999999999998765

>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=97.24  E-value=7.4e-05  Score=56.76  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.|.|++|+|||||++.+....
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            568999999999999999998776

>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=97.22  E-value=0.0011  Score=52.03  Aligned_cols=57  Identities=19%  Similarity=0.274  Sum_probs=36.6

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHH--HHHHHHHHhCC
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQ--IQEDIGKRIGF  236 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~--i~~~i~~~~~~  236 (287)
                      ..+.||.++|+.|+||||.+-.+.... . +.  ...+.+.....|....  =++...+.++.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v   65 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-E-QQ--GKSVMLAAGDTFRAAAVEQLQVWGQRNNI   65 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-H-TT--TCCEEEECCCTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HC--CCcEEEEecccccccchhhhhhhhhhcCC
Confidence            367899999999999998777776655 3 22  2345555555555432  34444555554

>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=97.22  E-value=0.00094  Score=54.41  Aligned_cols=88  Identities=18%  Similarity=0.162  Sum_probs=62.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|..|+||||||-.+....   +..-...+|+.....++.+.     +++++...+.   ....+.++..+.
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~---q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~  129 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEI  129 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHH---HHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHH---hcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHH
Confidence            467899999999999999997776654   22334689999999998775     4556653222   123456666666


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ ++.-|||+|.+-.
T Consensus       130 ~~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         130 ADMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHHTTCEEEEEEECSTT
T ss_pred             HHHHHhcCCCCEEEEecccc
Confidence            665555 5678999999865

>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=97.20  E-value=0.00011  Score=57.29  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++.+|.++|.+|+||||+|+.+....
T Consensus         1 ~p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           1 CPTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999998765

>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=97.15  E-value=0.00015  Score=56.28  Aligned_cols=27  Identities=22%  Similarity=0.337  Sum_probs=24.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.+||.|.|++|+||||+|+.+....
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            378999999999999999999998866

>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=97.14  E-value=0.00013  Score=55.59  Aligned_cols=24  Identities=21%  Similarity=0.394  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|.|+.|+||||+++.+....
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            689999999999999999998876

>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=97.14  E-value=0.00017  Score=54.27  Aligned_cols=27  Identities=26%  Similarity=0.518  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+++.|.|++|+||||+|+.+....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999998765

>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=97.13  E-value=8.8e-05  Score=57.14  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|.++|++|+||||+|+.+....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999998765

>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=97.13  E-value=0.00015  Score=54.72  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +...|.|.|++|+||||+|+.+....
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            55678999999999999999998765

>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=97.13  E-value=0.00014  Score=54.74  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +|++|+|..|+|||||+..+....
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            589999999999999999998765

>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=97.07  E-value=0.00016  Score=54.56  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++| ++||+|+||||+++.+....
T Consensus         3 ~Iv-liG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           3 KAV-LVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             SEE-EECSTTSSHHHHHHHHHHHH
T ss_pred             cEE-EECCCCCCHHHHHHHHHHHh
Confidence            444 55999999999999999876

>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=97.07  E-value=0.00015  Score=54.47  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+||+|+||||+++.+..+.
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            6788999999999999999876

>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=97.06  E-value=0.00029  Score=58.83  Aligned_cols=48  Identities=21%  Similarity=0.299  Sum_probs=36.4

Q ss_pred             CcccchHHHHHHHHHHHhc------------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE------------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++.++.+...+..            .+...+-+.++|++|+|||.||+.+.+..
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            4578999988888765521            11235667799999999999999998865

>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=97.06  E-value=0.0016  Score=53.03  Aligned_cols=88  Identities=17%  Similarity=0.167  Sum_probs=63.4

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASD  252 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~  252 (287)
                      ..-+++-|+|.+|+||||||-.+.... ....  -.++|+.....++++     ++++++...+.   ....+.++..+.
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~  126 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEI  126 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHH
Confidence            356799999999999999999887765 2222  357899999999885     56777764322   133456666666


Q ss_pred             HHHHhC-CCcEEEEEeCCCC
Q 043249          253 ITNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       253 l~~~l~-~kr~LlVLDDvw~  271 (287)
                      +...++ ++.-|||+|-+-.
T Consensus       127 ~~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         127 MELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHHTTTCCSEEEEECTTT
T ss_pred             HHHHHhcCCCcEEEEecccc
Confidence            766665 4577999999855

>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=97.02  E-value=0.0002  Score=53.99  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..++|.|.|++|+||||+|+.+...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999999654

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.99  E-value=0.00023  Score=53.59  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.|.|..|+||||+|+.+....
T Consensus         2 ~~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           2 TTRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            35789999999999999999998865

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.94  E-value=0.00022  Score=54.01  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.++|++|+||||+|+.+....
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            45688999999999999998876

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.92  E-value=0.00023  Score=53.92  Aligned_cols=22  Identities=41%  Similarity=0.681  Sum_probs=20.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|..|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            7899999999999999998765

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00033  Score=53.96  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+|.|.|++|+||||.|+.+.+..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999876

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.86  E-value=0.00031  Score=53.45  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+|-++|++|+||||+|+......
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            67899999999999999999886543

>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=96.86  E-value=0.00066  Score=53.29  Aligned_cols=41  Identities=20%  Similarity=0.233  Sum_probs=31.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKR  233 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~  233 (287)
                      -+|+|-|++|+||||+|+.+..+.     .|.+.         +...+++.++..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l-----g~~~i---------stGdl~R~~a~~   44 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF-----GFTYL---------DTGAMYRAATYM   44 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH-----CCEEE---------EHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh-----CCcEE---------CHHHHHHHHHHH
Confidence            468999999999999999999887     33222         456778876644

>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=96.83  E-value=0.0025  Score=51.69  Aligned_cols=87  Identities=18%  Similarity=0.178  Sum_probs=59.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDS---WQGKSFEERASDI  253 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~---~~~~~~~~l~~~l  253 (287)
                      .-+++-|+|.+|+|||||+-.+.... .  ..=...+|+.....++...     ++.++...+.   ....+.++..+.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~-q--~~g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAA-Q--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH-H--HTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH-H--cCCCEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            55799999999999999999887765 2  2223578999988888754     5566653221   1233455555666


Q ss_pred             HHHhC-CCcEEEEEeCCCC
Q 043249          254 TNTLK-HKKFVLLSDDIWE  271 (287)
Q Consensus       254 ~~~l~-~kr~LlVLDDvw~  271 (287)
                      ...++ ++.-|||+|-+-.
T Consensus       125 ~~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEECccc
Confidence            65555 4456899998854

>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=96.80  E-value=0.0014  Score=54.95  Aligned_cols=65  Identities=25%  Similarity=0.119  Sum_probs=35.8

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQED  229 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~  229 (287)
                      ..++++.+.....+..+|+|.|.+|+|||||...+.... ....+=-.++=+..+..++-..++.+
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~-~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL-IREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH-HHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH-HhcCCceeeecCCCceeeeccccccc
Confidence            445555565555578999999999999999999987665 32222112333444545555555544

>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=96.80  E-value=0.0017  Score=50.56  Aligned_cols=25  Identities=20%  Similarity=0.316  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-||+|.|..|+||||+|+.+....
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            4689999999999999999998765

>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=96.78  E-value=0.0046  Score=50.23  Aligned_cols=111  Identities=15%  Similarity=0.239  Sum_probs=68.0

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCC-HHHHHHHHHHHhCCC-CC----
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPN-LMQIQEDIGKRIGFS-TD----  239 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~-~~~i~~~i~~~~~~~-~~----  239 (287)
                      ++++.|..=. +-.-++|+|..|+|||+|+..+.+..  .+.+=++++++-+.+... ..++.++..+.--.. ..    
T Consensus        57 raID~l~pig-kGQr~~If~~~g~GKt~l~~~i~~~~--~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~  133 (276)
T d2jdid3          57 KVVDLLAPYA-KGGKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSK  133 (276)
T ss_dssp             HHHHHHSCEE-TTCEEEEEECTTSSHHHHHHHHHHHH--TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCC
T ss_pred             eeeeeecccc-CCCEEEeeCCCCCCHHHHHHHHHHHH--HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccce
Confidence            4555555322 33458999999999999999987763  244556788999987643 456777777642110 00    


Q ss_pred             -----CCCCCCHHH------HHHHHHHHhC---CCcEEEEEeCCCCcccccccc
Q 043249          240 -----SWQGKSFEE------RASDITNTLK---HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       240 -----~~~~~~~~~------l~~~l~~~l~---~kr~LlVLDDvw~~~~~~~~i  279 (287)
                           ...+.+...      .+-.+.++++   ++..|+++||+..-...+..+
T Consensus       134 tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A~A~rei  187 (276)
T d2jdid3         134 VALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEV  187 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHH
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHHHHHHHH
Confidence                 001222221      1234667764   789999999996623345444

>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=0.001  Score=51.26  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++|.|.|++|+||||+|+.+....
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            56899999999999999999998865

>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=96.75  E-value=0.0014  Score=54.63  Aligned_cols=48  Identities=27%  Similarity=0.447  Sum_probs=36.9

Q ss_pred             CcccchHHHHHHHHHHHhc-------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE-------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..++|.++.++.+.+.+..       +.....++..+|+.|+|||.||+.+....
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            4578999888888776542       12334588999999999999999987754

>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=96.73  E-value=0.00045  Score=53.06  Aligned_cols=26  Identities=19%  Similarity=0.241  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++..|.|.|++|+||||+|+.+.+..
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35567899999999999999998876

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.70  E-value=0.00051  Score=52.23  Aligned_cols=31  Identities=26%  Similarity=0.435  Sum_probs=24.8

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCE
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDV  211 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~  211 (287)
                      ++|.|.|+.|+||||+++.+.... . ..+|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L-~-~~~~~~   32 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL-D-NQGINN   32 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH-H-TTTCCE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH-H-HcCCCE
Confidence            678899999999999999998876 3 334544

>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=96.68  E-value=0.0019  Score=54.08  Aligned_cols=58  Identities=16%  Similarity=0.249  Sum_probs=38.7

Q ss_pred             HHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCC-EEEEEEecCCCC
Q 043249          163 ILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD-VVIWSVVSREPN  222 (287)
Q Consensus       163 ~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~-~~~wv~vs~~~~  222 (287)
                      ...++++.+.....+..+|+|.|++|+|||||.-.+.... . ...+. .++=+..+.+++
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~-~-~~g~~vaViavDpss~~~   94 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL-T-AAGHKVAVLAVDPSSTRT   94 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH-H-HTTCCEEEEEECGGGGSS
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH-h-hcCCceeeeecccccHHH
Confidence            4555666665555688999999999999999999988754 2 22232 244444444443

>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=96.67  E-value=0.0035  Score=51.89  Aligned_cols=82  Identities=10%  Similarity=0.002  Sum_probs=44.7

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFSTDSWQGKSFEERASDITN  255 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~l~~~l~~  255 (287)
                      ..+-+|+|.|..|+||||+|+.+.....+...+.. +.-++...=+-....+..  ..+...-+.....+.+.+...|..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~-v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~  154 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRR-VELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSD  154 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCC-EEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCc-eEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHH
Confidence            46789999999999999999999887611111222 223333221222222211  111111111234577777777777


Q ss_pred             HhCCC
Q 043249          256 TLKHK  260 (287)
Q Consensus       256 ~l~~k  260 (287)
                      ...++
T Consensus       155 lk~g~  159 (308)
T d1sq5a_         155 LKSGV  159 (308)
T ss_dssp             HTTTC
T ss_pred             HHcCC
Confidence            66554

>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=96.65  E-value=0.00056  Score=52.53  Aligned_cols=22  Identities=36%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v  198 (287)
                      ++-+|+|.|+.|+||||+|+.+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999987

>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=96.64  E-value=0.0014  Score=54.61  Aligned_cols=49  Identities=22%  Similarity=0.367  Sum_probs=38.7

Q ss_pred             CCcccchHHHHHHHHHHHhc-------cCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCITE-------QKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...++|.++.++.+...+..       .+....++..+|+.|+|||.||+.+..-.
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            35689999999988776631       23345688999999999999999998754

>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=96.63  E-value=0.0007  Score=51.92  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.++| |+|++|+||||+|+.+....
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999998765

>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=96.52  E-value=0.00071  Score=51.31  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.1

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|++|+||||+|+.+....
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            6799999999999999998766

>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=96.47  E-value=0.0008  Score=51.25  Aligned_cols=23  Identities=35%  Similarity=0.520  Sum_probs=20.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|.|++|+||||+|+.+....
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            36799999999999999999876

>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=96.45  E-value=0.00083  Score=51.06  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.|.|++|+||||+|+.+....
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            36788999999999999998876

>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=96.44  E-value=0.008  Score=46.70  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+||.++|+.|+||||.+-.+....
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~   34 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYY   34 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999998776665555

>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=96.41  E-value=0.0094  Score=46.42  Aligned_cols=27  Identities=30%  Similarity=0.346  Sum_probs=18.1

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+.||.++|+.|+||||.+-.+....
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~   36 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY   36 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999998766655555

>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=96.39  E-value=0.0012  Score=50.80  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..-|.|.|++|+||||+|+.+....
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34456688999999999999998865

>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=96.38  E-value=0.00064  Score=57.16  Aligned_cols=44  Identities=25%  Similarity=0.376  Sum_probs=32.3

Q ss_pred             CcccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          155 RTIVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +.++|.+..+..|.-.+...  ...-+-++|.+|+||||||+.+-.
T Consensus         7 ~~I~Gq~~~kral~laa~~~--~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhcc--CCCeEEEECCCCccHHHHHHHHHH
Confidence            35799998777655434322  234578999999999999998864

>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=96.38  E-value=0.0013  Score=51.50  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+|-+.|++|+||||||+.+....
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            77899999999999999999997654

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.38  E-value=0.00084  Score=54.49  Aligned_cols=24  Identities=33%  Similarity=0.711  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|+|+|-||+||||+|-.+....
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            679999999999999999987766

>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=96.28  E-value=0.012  Score=45.81  Aligned_cols=27  Identities=30%  Similarity=0.404  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.||.++|+.|+||||.+-.+....
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999998766666555

>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=96.24  E-value=0.0013  Score=49.87  Aligned_cols=22  Identities=32%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|++|+||||+|+.+....
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6689999999999999998876

>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=96.24  E-value=0.0019  Score=52.51  Aligned_cols=37  Identities=32%  Similarity=0.578  Sum_probs=28.1

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..+++.+..+  ..+||.+.|-||+||||++-.+....
T Consensus         8 ~~~~~~~~~~~--~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           8 LSALVDDIARN--EHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             HHHHHHHHHTT--SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcC--CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44455555555  78999999999999999887775544

>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=96.24  E-value=0.013  Score=45.48  Aligned_cols=26  Identities=23%  Similarity=0.563  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+||.++|+.|+||||.+-.+....
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~   30 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYY   30 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999877776655

>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=96.22  E-value=0.003  Score=53.66  Aligned_cols=46  Identities=17%  Similarity=0.173  Sum_probs=33.1

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.+...-...+.+..+..+.+.+.++|++|+|||++|+.+.+..
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3444444444444444454466788999999999999999999977

>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=96.20  E-value=0.0015  Score=49.77  Aligned_cols=24  Identities=21%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ++|.|+|+.|+|||||++.+....
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            578899999999999999997764

>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=96.16  E-value=0.0014  Score=50.42  Aligned_cols=23  Identities=39%  Similarity=0.533  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|+.|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            36699999999999999998765

>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=96.14  E-value=0.0011  Score=50.92  Aligned_cols=27  Identities=26%  Similarity=0.185  Sum_probs=23.3

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++.+|+|-|.-|+||||+++.+....
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            366799999999999999999986654

>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=96.14  E-value=0.0016  Score=49.51  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|.|++|+||||+|+.+....
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            4477999999999999998876

>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=96.12  E-value=0.0025  Score=51.12  Aligned_cols=46  Identities=13%  Similarity=0.185  Sum_probs=35.7

Q ss_pred             ccchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          157 IVGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       157 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +||....++++.+.+..-.....-|-|.|..|+|||++|+.++...
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            5788888888888776532233456899999999999999998754

>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=96.11  E-value=0.0055  Score=49.84  Aligned_cols=98  Identities=8%  Similarity=0.109  Sum_probs=55.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHH-HHHHHHHHHhCCC---------CCCCCCCC-HH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLM-QIQEDIGKRIGFS---------TDSWQGKS-FE  247 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~-~i~~~i~~~~~~~---------~~~~~~~~-~~  247 (287)
                      .-++|+|..|+|||+|+...-...   ..+-..++++-+....... ++.++....-...         +.+....- ..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            447899999999999998765432   3455577888888764322 3444433321000         00000001 11


Q ss_pred             HHHHHHHHHhC--CCcEEEEEeCCCCcccccccc
Q 043249          248 ERASDITNTLK--HKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       248 ~l~~~l~~~l~--~kr~LlVLDDvw~~~~~~~~i  279 (287)
                      ..+-.+.++++  +|+.|+++||+..-...+..+
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsltr~A~A~rEi  178 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQM  178 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCceeEEeeccHHHHHHHHHH
Confidence            23334555554  899999999996623345554

>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=96.03  E-value=0.0019  Score=51.08  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ||.|.|+.|.|||||...+-...
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            78999999999999999997654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=95.99  E-value=0.0018  Score=51.63  Aligned_cols=25  Identities=32%  Similarity=0.470  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|..|+|||||++.++.-
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4579999999999999999999753

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.99  E-value=0.0015  Score=50.75  Aligned_cols=25  Identities=40%  Similarity=0.688  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|+|||||.+.+..-
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcc
Confidence            5578999999999999999999753

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.98  E-value=0.0018  Score=49.47  Aligned_cols=23  Identities=39%  Similarity=0.592  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|+|+.|+|||||++.+....
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998764

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.96  E-value=0.0021  Score=50.94  Aligned_cols=24  Identities=25%  Similarity=0.531  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +-.+++|+|..|+|||||.+.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCcchhhHhccC
Confidence            567999999999999999999864

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.96  E-value=0.0018  Score=53.03  Aligned_cols=24  Identities=33%  Similarity=0.609  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|+|.|-||+||||+|-++....
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~L   26 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            578899999999999999876654

>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=95.95  E-value=0.0047  Score=48.04  Aligned_cols=43  Identities=7%  Similarity=0.173  Sum_probs=32.5

Q ss_pred             chHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          159 GQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+...+++.+.+..+. -.+.+-++|+.|+||||+|+.+.+..
T Consensus         6 w~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GGHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            44566777887777661 24458899999999999999887743

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.94  E-value=0.0023  Score=50.75  Aligned_cols=24  Identities=29%  Similarity=0.542  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +-.+++|+|+.|+|||||.+.+..
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            557999999999999999999974

>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=95.93  E-value=0.022  Score=46.41  Aligned_cols=84  Identities=12%  Similarity=0.025  Sum_probs=44.5

Q ss_pred             CCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCC-EEEEEEecCCCCHHHHHHHHHHHhCC-----CCCCCCCCCHHH
Q 043249          175 KKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFD-VVIWSVVSREPNLMQIQEDIGKRIGF-----STDSWQGKSFEE  248 (287)
Q Consensus       175 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~-~~~wv~vs~~~~~~~i~~~i~~~~~~-----~~~~~~~~~~~~  248 (287)
                      ...+-+|+|-|..|+|||||+..+.... ..+..+. .++-+++..=+-...=...+.+....     ..+.+..-+..-
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~L-~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~l  102 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNHL-MEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKL  102 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH-HHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHHH-HHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHH
Confidence            3456799999999999999999887654 2111122 23444443321111112223333211     112234557766


Q ss_pred             HHHHHHHHhCC
Q 043249          249 RASDITNTLKH  259 (287)
Q Consensus       249 l~~~l~~~l~~  259 (287)
                      +.+.|....++
T Consensus       103 l~~~l~~l~~~  113 (286)
T d1odfa_         103 LQEVLNTIFNN  113 (286)
T ss_dssp             HHHHHHHHTC-
T ss_pred             HHHHHHHHHhh
Confidence            66666666554

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.91  E-value=0.0023  Score=46.88  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987654

>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=95.90  E-value=0.003  Score=47.39  Aligned_cols=33  Identities=30%  Similarity=0.480  Sum_probs=23.2

Q ss_pred             HHHHHhccCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          167 VWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       167 l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +++.+.-.. +..-|.++|.+|+|||||...+..
T Consensus         3 ~~~~~~~~~-k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           3 VLQFLGLYK-KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHHTCTT-CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             hHHhccccC-CCCEEEEECCCCCCHHHHHHHHhC
Confidence            344444333 334467999999999999998744

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.90  E-value=0.0024  Score=48.52  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|.|+|+.|+|||||++.+....
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            578899999999999999988654

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.87  E-value=0.0021  Score=47.49  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=19.6

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|.+|+|||||.+.+.+..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999987754

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.87  E-value=0.0024  Score=51.48  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            557899999999999999999964

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0072  Score=46.98  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...|+|-|+-|+||||+++.+.+..
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578899999999999999999876

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.0022  Score=51.12  Aligned_cols=24  Identities=42%  Similarity=0.657  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            457999999999999999999974

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.83  E-value=0.0028  Score=50.50  Aligned_cols=24  Identities=33%  Similarity=0.540  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            557899999999999999999874

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.81  E-value=0.0026  Score=51.17  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            567999999999999999999864

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.81  E-value=0.0028  Score=48.51  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .++.|+|+|.+|+|||||...+.+
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            567899999999999999999975

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.77  E-value=0.0029  Score=51.80  Aligned_cols=26  Identities=27%  Similarity=0.494  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-.+++|+|..|+|||||++.+..-.
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            56789999999999999999997644

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.77  E-value=0.003  Score=50.54  Aligned_cols=24  Identities=33%  Similarity=0.534  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-..++|+|..|+|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            567999999999999999999864

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0025  Score=50.93  Aligned_cols=25  Identities=36%  Similarity=0.597  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-..++|+|..|.|||||++.+..-
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999653

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.73  E-value=0.045  Score=41.89  Aligned_cols=69  Identities=13%  Similarity=0.029  Sum_probs=41.8

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhc-cccCCCCEEEEEEe-cCCCCHHHHHHHHHHHhCC
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFC-SEEHDFDVVIWSVV-SREPNLMQIQEDIGKRIGF  236 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-~v~~~F~~~~wv~v-s~~~~~~~i~~~i~~~~~~  236 (287)
                      ++.+-+++...  ...-+-++|.+|+||||+|..+-+... ....|.|.. ++.- +.....+.+ +++.+.+..
T Consensus         3 ~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~-~i~~~~~~I~Id~I-R~i~~~~~~   73 (198)
T d2gnoa2           3 LETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVL-EIDPEGENIGIDDI-RTIKDFLNY   73 (198)
T ss_dssp             HHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEE-EECCSSSCBCHHHH-HHHHHHHTS
T ss_pred             HHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEE-EEeCCcCCCCHHHH-HHHHHHHhh
Confidence            44555556555  688899999999999999999877541 112344443 3332 223344444 346666544

>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=95.72  E-value=0.0028  Score=50.44  Aligned_cols=89  Identities=16%  Similarity=0.127  Sum_probs=52.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEE----------------ecCCC------C--------------
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSV----------------VSREP------N--------------  222 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~----------------vs~~~------~--------------  222 (287)
                      .+++|+|+.|+|||||.+.+..-. +   .-.-.+|+.                |.|++      +              
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~-~---p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~  100 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV-K---PDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVER  100 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS-C---CSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCH
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC-C---CCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCH
Confidence            478899999999999999998533 1   111222221                22221      1              


Q ss_pred             --HHHHHHHHHHHhCCCCC---CCCCCCHHH-HHHHHHHHhCCCcEEEEEeCCCC
Q 043249          223 --LMQIQEDIGKRIGFSTD---SWQGKSFEE-RASDITNTLKHKKFVLLSDDIWE  271 (287)
Q Consensus       223 --~~~i~~~i~~~~~~~~~---~~~~~~~~~-l~~~l~~~l~~kr~LlVLDDvw~  271 (287)
                        ..+-..++++.++....   .....+-.+ ..-.|.+.|-.+.=+|+||+-.+
T Consensus       101 ~~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts  155 (240)
T d2onka1         101 VERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLS  155 (240)
T ss_dssp             HHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTS
T ss_pred             HHHHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccc
Confidence              12345666666665321   111223222 23357778888888999998766

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.68  E-value=0.0031  Score=50.88  Aligned_cols=24  Identities=33%  Similarity=0.613  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            567999999999999999999965

>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=95.68  E-value=0.011  Score=48.28  Aligned_cols=100  Identities=16%  Similarity=0.185  Sum_probs=55.3

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEE-EecCCCCHHHHHHHHHHHhCCCC-CCCCC
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWS-VVSREPNLMQIQEDIGKRIGFST-DSWQG  243 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv-~vs~~~~~~~i~~~i~~~~~~~~-~~~~~  243 (287)
                      ++++.|..=. +-.-++|+|..|+|||||+..+.+.. . ..+-++++.+ .+.+...  ++ .++.......- ....+
T Consensus        32 r~ID~l~Pig-rGQr~~I~g~~g~GKT~l~~~i~~~~-~-~~~~~~v~~~~~iger~~--ev-~~~~~~~~~~vv~~t~d  105 (289)
T d1xpua3          32 RVLDLASPIG-RGQRGLIVAPPKAGKTMLLQNIAQSI-A-YNHPDCVLMVLLIDERPE--EV-TEMQRLVKGEVVASTFD  105 (289)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECSSSSHHHHHHHHHHHH-H-HHCTTSEEEEEEEEECHH--HH-HHHHHHCSSEEEEEETT
T ss_pred             eeeeeccccc-CCCeeeEeCCCCCCHHHHHHHHHHHH-h-hcCCCeEEEEEeeceeHH--HH-HhHHhhcceEEEeccCC
Confidence            5677776432 44677999999999999999998765 2 3344444444 3443322  22 22222221100 00011


Q ss_pred             CCHH------HHHHHHHHHhC--CCcEEEEEeCCCC
Q 043249          244 KSFE------ERASDITNTLK--HKKFVLLSDDIWE  271 (287)
Q Consensus       244 ~~~~------~l~~~l~~~l~--~kr~LlVLDDvw~  271 (287)
                      .+..      ..+-.+.+++.  ++..||++||+..
T Consensus       106 ~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         106 EPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             CchhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence            2221      12233455554  7899999999865

>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=95.64  E-value=0.0045  Score=46.36  Aligned_cols=24  Identities=46%  Similarity=0.552  Sum_probs=19.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +---|.++|.+|+|||||...+.+
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhc
Confidence            334567999999999999998855

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.64  E-value=0.0081  Score=47.31  Aligned_cols=88  Identities=17%  Similarity=0.168  Sum_probs=55.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHhCCC-------------CCCCCC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRIGFS-------------TDSWQG  243 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~~~~-------------~~~~~~  243 (287)
                      .-.++-|+|.+|+|||+|+..+....   ..+...++|++....  ...+.+.. .+++..             ......
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC--HHHHHHHH-HHcCCChHHHhhcCceEEEEeecch
Confidence            56799999999999999999998875   456667788876543  44443332 222221             001123


Q ss_pred             CCHHHHHHHHHHHhC-CCcEEEEEeCCC
Q 043249          244 KSFEERASDITNTLK-HKKFVLLSDDIW  270 (287)
Q Consensus       244 ~~~~~l~~~l~~~l~-~kr~LlVLDDvw  270 (287)
                      .........+...+. .+.-++|+|.+-
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecch
Confidence            345555566666554 456677888753

>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=95.57  E-value=0.0037  Score=50.95  Aligned_cols=26  Identities=23%  Similarity=0.338  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+++|.+.|-||+||||+|-.+....
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHH
Confidence            57899999999999999888876655

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0046  Score=48.91  Aligned_cols=26  Identities=19%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +++.|+|=|.-|+||||+++.+.+..
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            36789999999999999999998865

>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=95.49  E-value=0.0048  Score=47.95  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|.|+|+.|+|||||.+.+....
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            578899999999999999998764

>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=95.48  E-value=0.0027  Score=50.20  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            557999999999999999999975

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=95.47  E-value=0.0043  Score=46.84  Aligned_cols=34  Identities=26%  Similarity=0.396  Sum_probs=23.7

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .+.+.|.......++ .++|.+|+|||||...+.+
T Consensus         6 ~~~~~l~~~~k~~KI-~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_           6 SMFDKLWGSNKELRI-LILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             HHHGGGTTCSSCEEE-EEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHHhCCCceEEE-EEECCCCCCHHHHHHHHhc
Confidence            344444444445555 5999999999999998743

>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=95.43  E-value=0.0044  Score=49.34  Aligned_cols=25  Identities=40%  Similarity=0.620  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|.|||||.+.+..-
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5579999999999999999998653

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.41  E-value=0.0082  Score=46.14  Aligned_cols=23  Identities=35%  Similarity=0.751  Sum_probs=20.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|+|-|.-|+||||+++.+.+..
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            58899999999999999998766

>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=95.41  E-value=0.0072  Score=45.06  Aligned_cols=34  Identities=29%  Similarity=0.567  Sum_probs=24.3

Q ss_pred             HHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          165 DQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       165 ~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .++..++...  .. -|.|+|.+|+|||||...+-+.
T Consensus         5 ~~~~~~~~~k--~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQ--EH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTS--CE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCC--eE-EEEEECCCCCCHHHHHHHHhcC
Confidence            3455444433  34 4669999999999999987654

>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=95.37  E-value=0.0042  Score=48.29  Aligned_cols=20  Identities=35%  Similarity=0.404  Sum_probs=18.1

Q ss_pred             eEEEEEccCCCcHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v  198 (287)
                      -+|+|.|+.|+||||.|+.+
T Consensus         4 ~iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHH
Confidence            38999999999999999865

>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=95.36  E-value=0.0042  Score=46.01  Aligned_cols=21  Identities=29%  Similarity=0.302  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=95.32  E-value=0.0044  Score=49.42  Aligned_cols=24  Identities=38%  Similarity=0.580  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|+.|.|||||.+.+..
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            557999999999999999999975

>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=95.30  E-value=0.011  Score=46.27  Aligned_cols=50  Identities=12%  Similarity=0.092  Sum_probs=35.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccC----CCCEEEEEEecCCCCHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEH----DFDVVIWSVVSREPNLMQIQ  227 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~----~F~~~~wv~vs~~~~~~~i~  227 (287)
                      .-+++-|+|.+|+|||||+-.+.... ....    .-...+|+.....++...+.
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~   86 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPVRLV   86 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCGGGGH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHHHHHH
Confidence            56799999999999999998875433 1111    12468888887777654443

>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=95.29  E-value=0.0045  Score=46.40  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999987654

>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=95.29  E-value=0.026  Score=44.32  Aligned_cols=51  Identities=24%  Similarity=0.227  Sum_probs=36.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcc---ccCCCCEEEEEEecCCCCHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCS---EEHDFDVVIWSVVSREPNLMQIQ  227 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~~~i~  227 (287)
                      .-+++-|+|.+|+||||++..+......   ........+|+......+...+.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            5679999999999999999988765411   01123567888887777665443

>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=95.28  E-value=0.0026  Score=52.13  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=20.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..||+|.|..|+||||+++.+.+-.
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            56799999999999999999876655

>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=95.28  E-value=0.0051  Score=45.61  Aligned_cols=21  Identities=19%  Similarity=0.520  Sum_probs=18.0

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999877653

>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=95.26  E-value=0.0045  Score=45.83  Aligned_cols=21  Identities=38%  Similarity=0.669  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.|+|.+|+|||||...+.+.
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999997553

>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=95.25  E-value=0.011  Score=50.12  Aligned_cols=49  Identities=24%  Similarity=0.310  Sum_probs=35.8

Q ss_pred             CCcccchHHHHHHHHHHHh----------------------------ccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          154 DRTIVGQESILDQVWRCIT----------------------------EQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       154 ~~~~vGr~~~~~~l~~~L~----------------------------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+||.++.++.+-..+.                            +.+.....+-.+|+.|||||.||+.+....
T Consensus        16 ~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          16 DNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            3568999988777754441                            113345668889999999999999986643

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.24  E-value=0.02  Score=44.45  Aligned_cols=25  Identities=28%  Similarity=0.224  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCcHHHHHHH-HHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQ-VNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~-v~~~  201 (287)
                      .-.++-|+|.+|+|||+||.. +++.
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~   50 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNG   50 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            567889999999999999966 4443

>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=95.20  E-value=0.082  Score=42.03  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+..|+|.+|+|||||+-.+.-..
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            577799999999999998876543

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.18  E-value=0.003  Score=49.85  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+.|+|-|+-|+||||+++.+....
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            4789999999999999999987754

>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=95.16  E-value=0.0054  Score=47.49  Aligned_cols=20  Identities=45%  Similarity=0.516  Sum_probs=18.4

Q ss_pred             eEEEEEccCCCcHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v  198 (287)
                      -+|+|.|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999876

>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=95.15  E-value=0.0052  Score=49.41  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-.+++|+|+.|.|||||++.+..-
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCC
Confidence            4578999999999999999999764

>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=95.14  E-value=0.0054  Score=45.56  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999887653

>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=95.14  E-value=0.022  Score=44.22  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.+.|+|-|.-|+||||+++.+....
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHH
Confidence            45789999999999999999998876

>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=95.14  E-value=0.0054  Score=45.39  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||++.+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998653

>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=95.13  E-value=0.0057  Score=47.87  Aligned_cols=36  Identities=25%  Similarity=0.235  Sum_probs=26.5

Q ss_pred             eEEEEE-ccCCCcHHHHHHHHHHHhccccCCCCEEEEEEe
Q 043249          179 GIIGLY-GMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVV  217 (287)
Q Consensus       179 ~vi~I~-G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~v  217 (287)
                      +||+|+ |-||+||||+|..+.... ..  .-..+..|..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l-a~--~g~~VlliD~   38 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL-AQ--LGHDVTIVDA   38 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH-HH--TTCCEEEEEC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHH-Hh--CCCCEEEEeC
Confidence            789999 779999999999987766 22  2224566654

>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=95.07  E-value=0.0058  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=18.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3679999999999999987654

>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=95.07  E-value=0.005  Score=45.89  Aligned_cols=21  Identities=29%  Similarity=0.767  Sum_probs=18.1

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            579999999999999887653

>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=95.06  E-value=0.0058  Score=45.41  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.|+|.+|+|||||.+.+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999987643

>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=95.04  E-value=0.0059  Score=45.55  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|.+|+|||||.+.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988764

>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=95.02  E-value=0.0063  Score=45.53  Aligned_cols=25  Identities=32%  Similarity=0.563  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ....|+|+|.+|+|||||..++.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567899999999999999999864

>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=95.02  E-value=0.0041  Score=49.56  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|+|||||++.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            457999999999999999999975

>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=95.00  E-value=0.0061  Score=45.45  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .|+|+|.+|+|||||.+.+.+.
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            5899999999999999998653

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.98  E-value=0.0061  Score=45.41  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            679999999999999987653

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.95  E-value=0.0044  Score=46.71  Aligned_cols=20  Identities=35%  Similarity=0.660  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~  200 (287)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.95  E-value=0.0072  Score=44.86  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999987653

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.92  E-value=0.0075  Score=45.29  Aligned_cols=24  Identities=29%  Similarity=0.580  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+.|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999864

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.92  E-value=0.0067  Score=45.26  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999987654

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.92  E-value=0.0067  Score=45.01  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|-+|+|||||...+.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988764

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=94.92  E-value=0.0043  Score=49.93  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-..++|+|..|+|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            557899999999999999999864

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.92  E-value=0.0075  Score=43.92  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|.+|+|||||...+-+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.91  E-value=0.0067  Score=45.30  Aligned_cols=20  Identities=35%  Similarity=0.639  Sum_probs=18.0

Q ss_pred             EEEEccCCCcHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~  200 (287)
                      |.++|.+|+|||||...+.+
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            67999999999999998765

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.90  E-value=0.026  Score=43.42  Aligned_cols=24  Identities=33%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +.|+|-|..|+||||+++.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            568899999999999999998876

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.88  E-value=0.0081  Score=46.08  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +.|.|+|.+|+|||||...+.+.
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            47899999999999999999764

>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=94.87  E-value=0.01  Score=49.22  Aligned_cols=24  Identities=29%  Similarity=0.574  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .++-++|++|+|||.||+.+....
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            456668999999999999999865

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=94.87  E-value=0.0054  Score=48.61  Aligned_cols=24  Identities=38%  Similarity=0.592  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-.+++|+|..|.|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            557999999999999999999875

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.84  E-value=0.0079  Score=44.99  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      --|.|+|.+|+|||||...+.+.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999987654

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.82  E-value=0.0081  Score=44.72  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999987654

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.82  E-value=0.0073  Score=45.12  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987653

>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=94.81  E-value=0.017  Score=46.98  Aligned_cols=113  Identities=8%  Similarity=0.062  Sum_probs=58.5

Q ss_pred             HHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhcccc----CC-CCEEEEEEecCCCCH-HHHHHHHHHHhCCCC-
Q 043249          166 QVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEE----HD-FDVVIWSVVSREPNL-MQIQEDIGKRIGFST-  238 (287)
Q Consensus       166 ~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~----~~-F~~~~wv~vs~~~~~-~~i~~~i~~~~~~~~-  238 (287)
                      +.++.|..=. +-.-++|+|..|+|||+|+..+........    .+ =..++++-+.+.... .++.+.....-.... 
T Consensus        57 raID~l~pig-~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~t  135 (285)
T d2jdia3          57 KAVDSLVPIG-RGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT  135 (285)
T ss_dssp             HHHHHHSCCB-TTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGE
T ss_pred             eEEecccCcc-CCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccce
Confidence            3445554321 345668999999999999887654431111    11 114567777776543 344444443211100 


Q ss_pred             ---CCCCCCCHHH------HHHHHHHHh--CCCcEEEEEeCCCCcccccccc
Q 043249          239 ---DSWQGKSFEE------RASDITNTL--KHKKFVLLSDDIWESEIDLTKL  279 (287)
Q Consensus       239 ---~~~~~~~~~~------l~~~l~~~l--~~kr~LlVLDDvw~~~~~~~~i  279 (287)
                         ....+.....      .+-.+.+++  ++|..|+++||+..-...+.++
T Consensus       136 vvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A~A~rEi  187 (285)
T d2jdia3         136 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQM  187 (285)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHHHHHHHH
Confidence               0001122211      112244444  4899999999996633345544

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.0075  Score=44.87  Aligned_cols=21  Identities=29%  Similarity=0.708  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||+|.+.+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            468999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.0075  Score=45.18  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|..|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987654

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.78  E-value=0.0069  Score=45.51  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.78  E-value=0.0085  Score=44.37  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988664

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.008  Score=44.60  Aligned_cols=21  Identities=33%  Similarity=0.571  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999987654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.008  Score=44.56  Aligned_cols=21  Identities=33%  Similarity=0.605  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.0071  Score=45.75  Aligned_cols=20  Identities=35%  Similarity=0.546  Sum_probs=17.9

Q ss_pred             EEEEccCCCcHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~  200 (287)
                      |.|+|.+|+|||||+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67999999999999988765

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.72  E-value=0.0086  Score=46.87  Aligned_cols=24  Identities=38%  Similarity=0.620  Sum_probs=21.1

Q ss_pred             eEEEEE-ccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLY-GMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~-G~gGvGKTtLa~~v~~~~  202 (287)
                      +||+|+ +-||+||||+|..+....
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 669999999999987766

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.69  E-value=0.0092  Score=44.22  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.|+|..|+|||||...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45779999999999999987653

>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=94.67  E-value=0.025  Score=41.73  Aligned_cols=29  Identities=28%  Similarity=0.302  Sum_probs=24.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE  206 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~  206 (287)
                      ...+|.+.|.=|+||||++|.+.+.. .+.
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l-g~~   60 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI-GHQ   60 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT-TCC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc-ccc
Confidence            45689999999999999999999876 443

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.62  E-value=0.01  Score=45.63  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +-|.|+|.+|+|||||...+.+.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999998764

>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=94.62  E-value=0.019  Score=45.98  Aligned_cols=42  Identities=19%  Similarity=0.332  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          161 ESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       161 ~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ...+.++...+.......--|.++|..|+|||||...+++..
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            344556666666554455567899999999999999998753

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.61  E-value=0.0095  Score=45.46  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||...+.+.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3679999999999999988764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.54  E-value=0.0069  Score=45.75  Aligned_cols=21  Identities=43%  Similarity=0.707  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>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=94.51  E-value=0.081  Score=41.22  Aligned_cols=51  Identities=14%  Similarity=0.010  Sum_probs=37.1

Q ss_pred             CCceEEEEEccCCCcHHHHHHHHHHHhcc---ccCCCCEEEEEEecCCCCHHHH
Q 043249          176 KNNGIIGLYGMGGIGKTTLLKQVNNKFCS---EEHDFDVVIWSVVSREPNLMQI  226 (287)
Q Consensus       176 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~~~i  226 (287)
                      ..-+++-|+|.+|+|||++|..+......   ....+....|+.....++....
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            35679999999999999999988754311   1234567888888877765443

>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=94.46  E-value=0.015  Score=43.23  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=19.6

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ..+ |.++|.+|+|||||...+.+.
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            455 559999999999999998643

>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=94.46  E-value=0.01  Score=44.10  Aligned_cols=21  Identities=19%  Similarity=0.455  Sum_probs=18.1

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|..|+|||||...+.+.
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.45  E-value=0.01  Score=44.47  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568999999999999887654

>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=94.42  E-value=0.012  Score=44.31  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|-+|+|||||.+..-.+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            5699999999999999876554

>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=94.40  E-value=0.023  Score=49.28  Aligned_cols=48  Identities=23%  Similarity=0.310  Sum_probs=35.7

Q ss_pred             CcccchHHHHHHHHHHHhc-------c-----CCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          155 RTIVGQESILDQVWRCITE-------Q-----KKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       155 ~~~vGr~~~~~~l~~~L~~-------~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..+||.++.++.+--.+..       +     +-..+-|-++|+.|+|||.||+.+..-.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            4688999888777554421       1     1134568899999999999999998754

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.37  E-value=0.011  Score=44.60  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||...+.+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999887654

>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=94.35  E-value=0.012  Score=44.35  Aligned_cols=21  Identities=43%  Similarity=0.681  Sum_probs=18.4

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987653

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.35  E-value=0.076  Score=40.07  Aligned_cols=52  Identities=10%  Similarity=0.045  Sum_probs=33.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcc---ccCCCCEEEEEEecCCCCHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCS---EEHDFDVVIWSVVSREPNLMQIQE  228 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~---v~~~F~~~~wv~vs~~~~~~~i~~  228 (287)
                      .-.++-|.|.+|+||||||..+......   ....+....++..........+..
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLA   76 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHH
Confidence            4579999999999999999988665411   111233555666665555544433

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.34  E-value=0.014  Score=45.99  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .+|+|.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999986643

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.33  E-value=0.011  Score=44.70  Aligned_cols=21  Identities=38%  Similarity=0.502  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.|+|.+|+|||||...+.++
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            689999999999999887654

>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=94.29  E-value=0.013  Score=43.55  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=18.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987553

>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=94.25  E-value=0.013  Score=43.17  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=17.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568999999999999987554

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.25  E-value=0.012  Score=43.83  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=18.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|.++|.+|+|||||++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998754

>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=94.22  E-value=0.012  Score=44.80  Aligned_cols=18  Identities=56%  Similarity=0.756  Sum_probs=16.7

Q ss_pred             EEEEccCCCcHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v  198 (287)
                      |.++|.+|+|||||...+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            569999999999999998

>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=94.22  E-value=0.0089  Score=44.74  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +..-|+|+|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            567799999999999999988743

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.22  E-value=0.012  Score=46.23  Aligned_cols=25  Identities=40%  Similarity=0.513  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .++|..|.|+-|.|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999998774

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.20  E-value=0.014  Score=43.74  Aligned_cols=21  Identities=33%  Similarity=0.634  Sum_probs=18.4

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+-+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987653

>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=94.14  E-value=0.013  Score=42.93  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |+++|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998753

>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=94.14  E-value=0.013  Score=43.55  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|..|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998764

>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=94.13  E-value=0.013  Score=43.48  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=19.2

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.++|.+|+|||||...+.+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999987653

>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=94.06  E-value=0.013  Score=44.01  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|+|+|..|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999988764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.97  E-value=0.016  Score=43.14  Aligned_cols=21  Identities=33%  Similarity=0.627  Sum_probs=18.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|.++|.+|+|||||...+.+
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999977654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.92  E-value=0.017  Score=43.46  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999887664

>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=93.84  E-value=0.022  Score=43.75  Aligned_cols=24  Identities=17%  Similarity=0.026  Sum_probs=21.0

Q ss_pred             eEEEEEccC-CCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMG-GIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~g-GvGKTtLa~~v~~~~  202 (287)
                      +.+-|.|.| ||||||++-.+....
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            467899998 999999999988776

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.81  E-value=0.018  Score=43.16  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36799999999999999876643

>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=93.77  E-value=0.019  Score=43.37  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |.++|.+|+|||+|...+....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5689999999999999885543

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.74  E-value=0.0087  Score=44.65  Aligned_cols=21  Identities=43%  Similarity=0.577  Sum_probs=16.9

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|.+|+|||||...+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999876443

>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=93.63  E-value=0.018  Score=43.64  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=17.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~  201 (287)
                      |.++|..|+|||+|...+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999876553

>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=93.34  E-value=0.034  Score=46.78  Aligned_cols=53  Identities=19%  Similarity=0.185  Sum_probs=31.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIG  231 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~  231 (287)
                      ++..|.|.+|.||||++..+.....+....-..++.++..-.-....+.+.+.
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~  216 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLG  216 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHH
Confidence            58889999999999998765543312122223456666654434444444443

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.23  E-value=0.013  Score=43.63  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=8.3

Q ss_pred             EEEEccCCCcHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~  200 (287)
                      |.++|-+|+|||||...+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999976544

>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=93.18  E-value=0.045  Score=42.76  Aligned_cols=33  Identities=24%  Similarity=0.557  Sum_probs=24.9

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ++.|.++|.     -+...++|..|+|||||...+..+
T Consensus        86 ~~~L~~~l~-----~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhc-----CCeEEEECCCCCCHHHHHHhhcch
Confidence            455555553     246678999999999999998654

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.91  E-value=0.04  Score=44.57  Aligned_cols=32  Identities=16%  Similarity=0.338  Sum_probs=26.2

Q ss_pred             HHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          170 CITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       170 ~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .|..-+..+.||+|+|.-+.|||||+..++..
T Consensus        24 ~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            44433447999999999999999999998764

>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=92.90  E-value=0.035  Score=43.22  Aligned_cols=58  Identities=14%  Similarity=0.138  Sum_probs=36.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhcccc-------------CCCCEEEEEEecCCCCHHHHHHHHHHHhC
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEE-------------HDFDVVIWSVVSREPNLMQIQEDIGKRIG  235 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~-------------~~F~~~~wv~vs~~~~~~~i~~~i~~~~~  235 (287)
                      .-.++-|.|.+|+||||++..+......-.             .....+.|++....++.. ..+.+...+.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~~  103 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHAG  103 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhcc
Confidence            457999999999999999999876441110             112246777776555543 3344444443

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.80  E-value=0.0081  Score=44.01  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=19.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+++|.+|+|||||...+.+..
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999997653

>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=92.79  E-value=0.033  Score=43.33  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.++|.+|+|||||.+.....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45679999999999999987543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.61  E-value=0.033  Score=45.01  Aligned_cols=24  Identities=25%  Similarity=0.173  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      +++-|+|+|-+|.|||||+-.+..
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHH
Confidence            678899999999999999999854

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=92.59  E-value=0.26  Score=39.09  Aligned_cols=52  Identities=19%  Similarity=0.273  Sum_probs=32.2

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGK  232 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~  232 (287)
                      .-.++.|.|.+|+||||++..+..+. -....+. +.+++.  +.+...+...++.
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~~-v~~~s~--E~~~~~~~~r~~~   85 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQW-GTAMGKK-VGLAML--EESVEETAEDLIG   85 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHH-HHTSCCC-EEEEES--SSCHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhh-hhhcccc-eeEeee--ccchhhHHhHHHH
Confidence            34678899999999999998886543 2233343 334443  3445555555444

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=92.24  E-value=0.046  Score=42.64  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .++|+|+|-.+.|||||+..+...
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhh
Confidence            357999999999999999988654

>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=91.74  E-value=0.045  Score=40.89  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|+|+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999998864

>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=91.72  E-value=0.048  Score=43.84  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCcHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~  199 (287)
                      ++-|+|+|-.|.|||||+-.+.
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            4678999999999999999884

>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=91.55  E-value=0.077  Score=43.82  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      -|.|.|..|+||||+++.+...
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            4689999999999999998764

>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=90.81  E-value=0.06  Score=43.39  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      -|+|||++.+|||||-..+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            57999999999999999987653

>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=90.74  E-value=0.16  Score=40.58  Aligned_cols=38  Identities=18%  Similarity=0.245  Sum_probs=28.8

Q ss_pred             HHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHH
Q 043249          164 LDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       164 ~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      ...+..+|.....+...+-++|.|+.|||+++..+..-
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            34455566555456778889999999999999998763

>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=90.73  E-value=0.075  Score=39.77  Aligned_cols=23  Identities=17%  Similarity=0.229  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.|.|..|+||||||-....+
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            45789999999999999887653

>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=90.66  E-value=0.12  Score=42.80  Aligned_cols=25  Identities=32%  Similarity=0.219  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +-.|.|=|.-|+||||+++.+.+..
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            3456777999999999999998876

>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=90.06  E-value=0.15  Score=38.89  Aligned_cols=40  Identities=10%  Similarity=0.115  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          162 SILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       162 ~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .-+..+..+|... .+-.-+.++|+++.|||++|..+.+-.
T Consensus        38 ~Fl~~l~~~l~~~-PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLKGT-PKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHHTC-TTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-CCceEEEEECCCCccHHHHHHHHHHHh
Confidence            4456666667443 466788899999999999998876654

>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=89.95  E-value=0.082  Score=39.57  Aligned_cols=22  Identities=32%  Similarity=0.289  Sum_probs=18.7

Q ss_pred             eEEEEEccCCCcHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      .-+.|.|..|+||||||-....
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4567899999999999988765

>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=89.92  E-value=0.077  Score=43.16  Aligned_cols=24  Identities=25%  Similarity=0.541  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHHh
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      --|+|+|.+.+|||||-.++-+..
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHST
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCC
Confidence            348999999999999999998653

>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=89.82  E-value=0.12  Score=43.97  Aligned_cols=24  Identities=17%  Similarity=0.338  Sum_probs=20.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHH
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..--|+|+|.+|+|||||...+..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            345589999999999999999975

>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=89.76  E-value=0.2  Score=42.54  Aligned_cols=43  Identities=26%  Similarity=0.338  Sum_probs=31.1

Q ss_pred             cchHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          158 VGQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       158 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.....-..++.+...  ..++|-|.|+.|.||||....+.+..
T Consensus       140 LG~~~~~~~~l~~l~~~--~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKR--PHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SCCCHHHHHHHHHHHTS--SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHhh--hhceEEEEcCCCCCccHHHHHHhhhh
Confidence            45554444444444444  56899999999999999999998864

>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=89.70  E-value=0.1  Score=38.72  Aligned_cols=23  Identities=22%  Similarity=0.251  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .-|.|.|..|+||||||-.....
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            45679999999999999877653

>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=89.41  E-value=0.03  Score=42.03  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=18.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +..|+|..|+||||+..+++--
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4468899999999999999743

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.89  E-value=0.11  Score=43.29  Aligned_cols=27  Identities=19%  Similarity=0.162  Sum_probs=23.1

Q ss_pred             cCCCceEEEEEccCCCcHHHHHHHHHH
Q 043249          174 QKKNNGIIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       174 ~~~~~~vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      ..++++-|+|+|-.|.|||||+-.+..
T Consensus        13 ~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2          13 KVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             CGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             CcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            444788899999999999999988753

>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=88.84  E-value=0.1  Score=42.68  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHHHh
Q 043249          181 IGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      |+|+|.+.+|||||-..+-+..
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~   24 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVD   24 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC--
T ss_pred             EeEECCCCCCHHHHHHHHHCCC
Confidence            7999999999999999986543

>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=88.13  E-value=0.13  Score=39.24  Aligned_cols=19  Identities=37%  Similarity=0.471  Sum_probs=17.6

Q ss_pred             EEEEccCCCcHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVN  199 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~  199 (287)
                      |+|+|-++.|||||+.++.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7999999999999998874

>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=88.00  E-value=0.11  Score=42.86  Aligned_cols=25  Identities=24%  Similarity=0.073  Sum_probs=19.7

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      +..|.|=|.-|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            3457888999999999999996543

>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=87.37  E-value=0.11  Score=41.70  Aligned_cols=16  Identities=25%  Similarity=0.266  Sum_probs=13.4

Q ss_pred             EEEEEccCCCcHHHHH
Q 043249          180 IIGLYGMGGIGKTTLL  195 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa  195 (287)
                      .+.|.|.+|+||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            4678899999999764

>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=87.24  E-value=0.07  Score=41.77  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=18.6

Q ss_pred             eEEEEEccCCCcHHHHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      +...++|..|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            34458899999999999998654

>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=86.86  E-value=0.12  Score=42.64  Aligned_cols=23  Identities=43%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHHHh
Q 043249          180 IIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      .|.|=|.-|+||||+++.+.+..
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            47788999999999999998765

>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=86.21  E-value=0.15  Score=41.28  Aligned_cols=16  Identities=31%  Similarity=0.445  Sum_probs=13.4

Q ss_pred             EEEEccCCCcHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLK  196 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~  196 (287)
                      +-|.|.+|+||||.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            5688999999998654

>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=86.20  E-value=0.19  Score=40.17  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKF  202 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~  202 (287)
                      ..--++|+|++.+||+||+..+.+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34458999999999999999998753

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=83.24  E-value=2.4  Score=32.66  Aligned_cols=51  Identities=16%  Similarity=0.090  Sum_probs=36.4

Q ss_pred             chHHHHHHHHHHHhccCCCceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEE
Q 043249          159 GQESILDQVWRCITEQKKNNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVI  213 (287)
Q Consensus       159 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~  213 (287)
                      ......+++.+.+..+  .....-++|-.|+|||-++-......  ....++..+
T Consensus        59 ~Q~~~~~~i~~~~~~~--~~~~~LL~GdvGsGKT~V~~~a~~~~--~~~g~qv~~  109 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQP--LAMDRLVCGDVGFGKTEVAMRAAFLA--VDNHKQVAV  109 (233)
T ss_dssp             HHHHHHHHHHHHHHSS--SCCEEEEECCCCTTTHHHHHHHHHHH--HTTTCEEEE
T ss_pred             hHHHHHHHHHHHHhcc--CccCeEEEcCCCCCcHHHHHHHHHHH--HHcCCceEE
Confidence            3456677777777776  77788899999999999988766543  244454443

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.04  E-value=0.27  Score=39.48  Aligned_cols=20  Identities=20%  Similarity=0.566  Sum_probs=17.8

Q ss_pred             eEEEEEccCCCcHHHHHHHH
Q 043249          179 GIIGLYGMGGIGKTTLLKQV  198 (287)
Q Consensus       179 ~vi~I~G~gGvGKTtLa~~v  198 (287)
                      ++-.|+|..|+||||+..++
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            46689999999999998877

>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=81.27  E-value=0.41  Score=40.48  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=19.2

Q ss_pred             ceEEEEEccCCCcHHHHHHHHHHH
Q 043249          178 NGIIGLYGMGGIGKTTLLKQVNNK  201 (287)
Q Consensus       178 ~~vi~I~G~gGvGKTtLa~~v~~~  201 (287)
                      .+.+.|+|..|+|||++++.+...
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHH
Confidence            356789999999999998765543

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=81.05  E-value=0.44  Score=35.61  Aligned_cols=21  Identities=43%  Similarity=0.518  Sum_probs=18.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHH
Q 043249          180 IIGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       180 vi~I~G~gGvGKTtLa~~v~~  200 (287)
                      -|+|+|-...|||||+..+-.
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            369999999999999999853

>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=80.98  E-value=0.45  Score=35.91  Aligned_cols=20  Identities=35%  Similarity=0.483  Sum_probs=17.9

Q ss_pred             EEEEccCCCcHHHHHHHHHH
Q 043249          181 IGLYGMGGIGKTTLLKQVNN  200 (287)
Q Consensus       181 i~I~G~gGvGKTtLa~~v~~  200 (287)
                      |+|+|-.+.|||||+..+..
T Consensus         6 i~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999997743

>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=80.96  E-value=0.36  Score=33.71  Aligned_cols=51  Identities=12%  Similarity=0.048  Sum_probs=31.7

Q ss_pred             CceEEEEEccCCCcHHHHHHHHHHHhccccCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 043249          177 NNGIIGLYGMGGIGKTTLLKQVNNKFCSEEHDFDVVIWSVVSREPNLMQIQEDIGKRI  234 (287)
Q Consensus       177 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~v~~~F~~~~wv~vs~~~~~~~i~~~i~~~~  234 (287)
                      +.++.-|++..|.|||+++-..+...       ..++.+.+....-..+..+.+.+.+
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            55778899999999999987665432       2345555554333344444444443